Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A10
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: 110302803
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1825971 characters in sequence are not A, C, G, or T
File 3 of 343
Found at i:924582 original size:16 final size:16
Alignment explanation
Indices: 924561--924594 Score: 68
Period size: 16 Copynumber: 2.1 Consensus size: 16
924551 GCTCATGTAA
924561 AGTAGAAGATTTAACC
1 AGTAGAAGATTTAACC
924577 AGTAGAAGATTTAACC
1 AGTAGAAGATTTAACC
924593 AG
1 AG
924595 GGGATAAGAA
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:0.44, C:0.12, G:0.21, T:0.24
Consensus pattern (16 bp):
AGTAGAAGATTTAACC
Found at i:924899 original size:24 final size:24
Alignment explanation
Indices: 924862--924908 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 24
924852 ACAAATCGAC
924862 TTTTAATATGTATAAAT-TTTAAT
1 TTTTAATATGTATAAATATTTAAT
* *
924885 TTTTAAATATTTATATATATTTAA
1 TTTT-AATATGTATAAATATTTAA
924909 ATATTGGAAC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
23 4 0.20
24 11 0.55
25 5 0.25
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (24 bp):
TTTTAATATGTATAAATATTTAAT
Found at i:926686 original size:43 final size:43
Alignment explanation
Indices: 926616--926697 Score: 139
Period size: 43 Copynumber: 1.9 Consensus size: 43
926606 CTCTATCCTC
*
926616 CATTTTAATTTAATCAAACTTTAAATATTCTCACTAATTGTTT
1 CATTTTAATTTAATCAAACTTTAAATATGCTCACTAATTGTTT
926659 CATTTTAATTTAATC-AACTTTATAATATGCTCACTAATT
1 CATTTTAATTTAATCAAACTTTA-AATATGCTCACTAATT
926698 TGTCTTCTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 2
0.93 0.03 0.05
Matches are distributed among these distances:
42 7 0.19
43 30 0.81
ACGTcount: A:0.35, C:0.15, G:0.02, T:0.48
Consensus pattern (43 bp):
CATTTTAATTTAATCAAACTTTAAATATGCTCACTAATTGTTT
Found at i:926709 original size:43 final size:42
Alignment explanation
Indices: 926619--926710 Score: 125
Period size: 43 Copynumber: 2.1 Consensus size: 42
926609 TATCCTCCAT
*
926619 TTTAATTTAATCAAACTTTAAATATTCTCACTAATTGTTTCA
1 TTTAATTTAATCAAACTTTAAATATGCTCACTAATTGTTTCA
926661 TTTTAATTTAATC-AACTTTATAATATGCTCACTAATTTGTCTTC-
1 -TTTAATTTAATCAAACTTTA-AATATGCTCACTAA-TTGT-TTCA
926705 TTTAAT
1 TTTAAT
926711 AGGTTTGTTT
Statistics
Matches: 45, Mismatches: 1, Indels: 6
0.87 0.02 0.12
Matches are distributed among these distances:
42 7 0.16
43 31 0.69
44 4 0.09
45 3 0.07
ACGTcount: A:0.33, C:0.14, G:0.03, T:0.50
Consensus pattern (42 bp):
TTTAATTTAATCAAACTTTAAATATGCTCACTAATTGTTTCA
Found at i:932254 original size:29 final size:30
Alignment explanation
Indices: 932207--932271 Score: 96
Period size: 29 Copynumber: 2.2 Consensus size: 30
932197 TGGCCCAAGA
* * *
932207 GTAAATACTCAAAATTTGAAGGATTAAAGT
1 GTAAATACTAAAAAGTTGAAGGACTAAAGT
932237 GTAAATA-TAAAAAGTTGAAGGACTAAAGT
1 GTAAATACTAAAAAGTTGAAGGACTAAAGT
932266 GTAAAT
1 GTAAAT
932272 TCGATGGATC
Statistics
Matches: 32, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
29 25 0.78
30 7 0.22
ACGTcount: A:0.49, C:0.05, G:0.18, T:0.28
Consensus pattern (30 bp):
GTAAATACTAAAAAGTTGAAGGACTAAAGT
Found at i:932628 original size:46 final size:46
Alignment explanation
Indices: 932576--932711 Score: 202
Period size: 46 Copynumber: 3.0 Consensus size: 46
932566 AGTGTGCTCT
932576 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
932622 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
932668 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
932712 TCATGTCAAA
Statistics
Matches: 83, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
45 1 0.01
46 82 0.99
ACGTcount: A:0.40, C:0.15, G:0.24, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:937742 original size:26 final size:27
Alignment explanation
Indices: 937713--937763 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 27
937703 AAAATATTAT
*
937713 TTATGTATAT-TTAAAAGATAAAAAGA
1 TTATATATATATTAAAAGATAAAAAGA
* *
937739 TTATATATATATTCAAAGCTAAAAA
1 TTATATATATATTAAAAGATAAAAA
937764 TTTTTAAATT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 9 0.43
27 12 0.57
ACGTcount: A:0.53, C:0.04, G:0.08, T:0.35
Consensus pattern (27 bp):
TTATATATATATTAAAAGATAAAAAGA
Found at i:941521 original size:36 final size:34
Alignment explanation
Indices: 941434--941521 Score: 88
Period size: 36 Copynumber: 2.4 Consensus size: 34
941424 ATCAATTACG
941434 TTAATAAATAAAATTATAAAAATAATTAATTTATTTT
1 TTAATAAA-AAAA--ATAAAAATAATTAATTTATTTT
** *
941471 TTAATCTAACAAATAAAAATATACTT-ATTTATTTT
1 TTAATAAAAAAAATAAAAATA-A-TTAATTTATTTT
941506 TTAAATAAAAAAAATA
1 TT-AATAAAAAAAATA
941522 CAATTTAACT
Statistics
Matches: 42, Mismatches: 6, Indels: 7
0.76 0.11 0.13
Matches are distributed among these distances:
34 9 0.21
35 12 0.29
36 15 0.36
37 6 0.14
ACGTcount: A:0.55, C:0.03, G:0.00, T:0.42
Consensus pattern (34 bp):
TTAATAAAAAAAATAAAAATAATTAATTTATTTT
Found at i:946573 original size:21 final size:21
Alignment explanation
Indices: 946547--946587 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
946537 AGACGAGCAA
* *
946547 TACTCCACAGCAGGTGGAGTG
1 TACTCCAAAACAGGTGGAGTG
946568 TACTCCAAAACAGGTGGAGT
1 TACTCCAAAACAGGTGGAGT
946588 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:950110 original size:24 final size:26
Alignment explanation
Indices: 950080--950128 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 26
950070 ATTTTAAATT
950080 TTTTAAAATTA-AATTTAAA-CAAAA
1 TTTTAAAATTAGAATTTAAATCAAAA
* *
950104 TTTTAAATTTAGATTTTAAATCAAA
1 TTTTAAAATTAGAATTTAAATCAAA
950129 TTAAATCTTA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 10 0.48
25 7 0.33
26 4 0.19
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (26 bp):
TTTTAAAATTAGAATTTAAATCAAAA
Found at i:950478 original size:29 final size:31
Alignment explanation
Indices: 950434--950498 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 31
950424 TATAGTTTAT
*
950434 ATTTTTATAATTTTTAAAAAATTAAATTA-A
1 ATTTTTATAATTTTTAAAAAATTAAAGTATA
* *
950464 ATTTTTATAA-TTTTAAGAGATTAAAGTATA
1 ATTTTTATAATTTTTAAAAAATTAAAGTATA
950494 ATTTT
1 ATTTT
950499 ATCTTTACTA
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
29 15 0.48
30 16 0.52
ACGTcount: A:0.45, C:0.00, G:0.05, T:0.51
Consensus pattern (31 bp):
ATTTTTATAATTTTTAAAAAATTAAAGTATA
Found at i:950499 original size:29 final size:30
Alignment explanation
Indices: 950431--950500 Score: 81
Period size: 29 Copynumber: 2.4 Consensus size: 30
950421 TTTTATAGTT
* *
950431 TATATTTTTATAATTTTTAAAAAATTAAAT
1 TATAATTTTATAATTTTTAAAAAATTAAAG
* *
950461 TA-AATTTTTATAA-TTTTAAGAGATTAAAG
1 TATAA-TTTTATAATTTTTAAAAAATTAAAG
950490 TATAATTTTAT
1 TATAATTTTAT
950501 CTTTACTAAT
Statistics
Matches: 34, Mismatches: 4, Indels: 5
0.79 0.09 0.12
Matches are distributed among these distances:
29 22 0.65
30 12 0.35
ACGTcount: A:0.44, C:0.00, G:0.04, T:0.51
Consensus pattern (30 bp):
TATAATTTTATAATTTTTAAAAAATTAAAG
Found at i:953463 original size:6 final size:6
Alignment explanation
Indices: 953452--953485 Score: 68
Period size: 6 Copynumber: 5.7 Consensus size: 6
953442 TTGAATGTTT
953452 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
953486 ATTGTCGCTG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 28 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (6 bp):
TTTTTA
Found at i:954045 original size:38 final size:38
Alignment explanation
Indices: 953990--954067 Score: 138
Period size: 38 Copynumber: 2.1 Consensus size: 38
953980 TGTAATCAAA
*
953990 CTTTTAGTATAAAGGTCTCCATGGTACTTTTACCATAT
1 CTTTTAGTATAAAGGTCTCCATCGTACTTTTACCATAT
*
954028 CTTTTAGTATAAGGGTCTCCATCGTACTTTTACCATAT
1 CTTTTAGTATAAAGGTCTCCATCGTACTTTTACCATAT
954066 CT
1 CT
954068 ACATGTTCAT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.24, C:0.21, G:0.13, T:0.42
Consensus pattern (38 bp):
CTTTTAGTATAAAGGTCTCCATCGTACTTTTACCATAT
Found at i:962688 original size:67 final size:67
Alignment explanation
Indices: 962606--962736 Score: 226
Period size: 67 Copynumber: 2.0 Consensus size: 67
962596 CAAACATGCT
*
962606 ATGACTCACTGAAAAAAACTTAAAACTAGTCTTCAAAATAACTCTAAACCTTAAAATGATCGAAG
1 ATGACTCACTAAAAAAAACTTAAAACTAGTCTTCAAAATAACTCTAAACCTTAAAATGATCGAAG
962671 CC
66 CC
* * *
962673 ATGACTCACTAAAAAAAACTTAAAGCTAGTCTTCAAAATGACTCTAAATCTTAAAATGATCGAA
1 ATGACTCACTAAAAAAAACTTAAAACTAGTCTTCAAAATAACTCTAAACCTTAAAATGATCGAA
962737 ATACGTAATA
Statistics
Matches: 60, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
67 60 1.00
ACGTcount: A:0.47, C:0.19, G:0.09, T:0.25
Consensus pattern (67 bp):
ATGACTCACTAAAAAAAACTTAAAACTAGTCTTCAAAATAACTCTAAACCTTAAAATGATCGAAG
CC
Found at i:967951 original size:3 final size:3
Alignment explanation
Indices: 967943--967979 Score: 74
Period size: 3 Copynumber: 12.3 Consensus size: 3
967933 CTTTCATCAC
967943 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
967980 ATCACCAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 34 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:973427 original size:31 final size:31
Alignment explanation
Indices: 973392--973452 Score: 88
Period size: 31 Copynumber: 2.0 Consensus size: 31
973382 TTATATTTTA
973392 ATTTGATCAAATTTAGTCAT-TGTACTTTTCT
1 ATTTGATCAAATTTAGT-ATATGTACTTTTCT
* *
973423 ATTTGATCAATTTTAGTTTATGTACTTTTC
1 ATTTGATCAAATTTAGTATATGTACTTTTC
973453 AAATTTTGAA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
30 1 0.04
31 26 0.96
ACGTcount: A:0.25, C:0.11, G:0.10, T:0.54
Consensus pattern (31 bp):
ATTTGATCAAATTTAGTATATGTACTTTTCT
Found at i:980184 original size:10 final size:8
Alignment explanation
Indices: 980167--980208 Score: 66
Period size: 8 Copynumber: 5.2 Consensus size: 8
980157 TGTATGCATG
980167 CATGCACA
1 CATGCACA
980175 CATGCACA
1 CATGCACA
980183 CATGCACA
1 CATGCACA
*
980191 CATGCACG
1 CATGCACA
*
980199 CACGCACA
1 CATGCACA
980207 CA
1 CA
980209 CTAATACATA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
8 31 1.00
ACGTcount: A:0.36, C:0.40, G:0.14, T:0.10
Consensus pattern (8 bp):
CATGCACA
Found at i:983197 original size:14 final size:15
Alignment explanation
Indices: 983178--983206 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
983168 ATATTATATT
983178 AAATTAAA-TTAAAA
1 AAATTAAATTTAAAA
983192 AAATTAAATTTAAAA
1 AAATTAAATTTAAAA
983207 TTTAAAACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
AAATTAAATTTAAAA
Found at i:984046 original size:19 final size:19
Alignment explanation
Indices: 984017--984063 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
984007 AGAGATTTGA
*
984017 ATAACTTAAAATAACGTATT
1 ATAA-TTAAAATAACGAATT
**
984037 ATAATTAAAATCTCGAATT
1 ATAATTAAAATAACGAATT
984056 ATAATTAA
1 ATAATTAA
984064 TAAGTAAGGA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
19 20 0.83
20 4 0.17
ACGTcount: A:0.51, C:0.09, G:0.04, T:0.36
Consensus pattern (19 bp):
ATAATTAAAATAACGAATT
Found at i:1000077 original size:7 final size:7
Alignment explanation
Indices: 1000065--1000093 Score: 58
Period size: 7 Copynumber: 4.1 Consensus size: 7
1000055 TATAATTTGT
1000065 ATTATTA
1 ATTATTA
1000072 ATTATTA
1 ATTATTA
1000079 ATTATTA
1 ATTATTA
1000086 ATTATTA
1 ATTATTA
1000093 A
1 A
1000094 GTTCAGTTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 22 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (7 bp):
ATTATTA
Found at i:1000785 original size:16 final size:16
Alignment explanation
Indices: 1000766--1000806 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
1000756 CTTAAACCCG
*
1000766 AAATAATCAAAACTTA
1 AAATAATCAAAACTCA
1000782 AAATAAGT-AAAACTCA
1 AAATAA-TCAAAACTCA
1000798 AAATAATCA
1 AAATAATCA
1000807 GAATCTAAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
15 1 0.05
16 20 0.91
17 1 0.05
ACGTcount: A:0.63, C:0.12, G:0.02, T:0.22
Consensus pattern (16 bp):
AAATAATCAAAACTCA
Found at i:1003383 original size:135 final size:133
Alignment explanation
Indices: 1003136--1003558 Score: 427
Period size: 135 Copynumber: 3.1 Consensus size: 133
1003126 GGCTACCGTG
** * * ** * ** * *
1003136 TTTATGAACATTAAAAAGCGGAGCAAACGTAGAAATTTGGACAGTAAGATGACCGAAAGAATCCC
1 TTTATGAACATTAAAGCGCAGAGCAAGCACAGAAACTTGGACAGTGCGATGACAGAAAGAAGCCC
* * *
1003201 TCAGGAGAATAAGAAGGATGCAATGAGTGAAAGAAGCTCTGAAGAGACTAAGAAGGAAAACTGCG
66 TCAGGAGAATAAGAAGGATGCAATGA-TGAAAGAAGCCCTCAGGAGACTAAGAAGGAAAACTGCG
1003266 ATCGT
130 ATC-T
* * * * ***
1003271 TTTATGAACGTTAAAGTGCGGAGCAAAG-GCAGAAACTTGGTTGGTGCGATGACAGAAAGAAGCC
1 TTTATGAACATTAAAGCGCAGAGC-AAGCACAGAAACTTGGACAGTGCGATGACAGAAAGAAGCC
* * * * * *
1003335 CTCAGGAGAGTGAGGAGAATGCAATGACTGAAAGTAGCCCTCAGGAGACTAAGAAGGAAAACTGT
65 CTCAGGAGAATAAGAAGGATGCAATGA-TGAAAGAAGCCCTCAGGAGACTAAGAAGGAAAACTGC
1003400 GATCTT
129 GATC-T
* * * *
1003406 TTTGTGAACATTAAAGCGCAGAGCAAGCACAGGAATTTGGACAGTGCTATGA-ATGAAAGAAGCC
1 TTTATGAACATTAAAGCGCAGAGCAAGCACAGAAACTTGGACAGTGCGATGACA-GAAAGAAGCC
** * * *
1003470 CTTGGGAGACTAAGAAGGATGCAATGATCGAAAGAAGCCCTCAGGAGACTAAAAAGGAAAATTGC
65 CTCAGGAGAATAAGAAGGATGCAATGAT-GAAAGAAGCCCTCAGGAGACTAAGAAGGAAAACTGC
*
1003535 TATCT
129 GATCT
1003540 TTCTATGAACATTAAAGCG
1 TT-TATGAACATTAAAGCG
1003559 AATCTGGACA
Statistics
Matches: 236, Mismatches: 47, Indels: 10
0.81 0.16 0.03
Matches are distributed among these distances:
134 8 0.03
135 226 0.96
136 2 0.01
ACGTcount: A:0.39, C:0.15, G:0.27, T:0.19
Consensus pattern (133 bp):
TTTATGAACATTAAAGCGCAGAGCAAGCACAGAAACTTGGACAGTGCGATGACAGAAAGAAGCCC
TCAGGAGAATAAGAAGGATGCAATGATGAAAGAAGCCCTCAGGAGACTAAGAAGGAAAACTGCGA
TCT
Found at i:1003777 original size:96 final size:95
Alignment explanation
Indices: 1003559--1003780 Score: 239
Period size: 96 Copynumber: 2.3 Consensus size: 95
1003549 CATTAAAGCG
* * * *
1003559 AATCTGGACAGTGCTATGACTGAAAGAAGCCAGCAGGAGACTAAGAAGGAAAACTGCGCTCTTTT
1 AATCTGGACAGTGCAATGACTGAAAGAAGCCAG-AGGAGACTAAGAAGAAAAACTGCGATCTTTC
* *
1003624 TATGAACATTAAAGCACGGAGCAAACGTAGA
65 TATAAACATTAAAGCACGGAGCAAACGCAGA
* ** ** * * *
1003655 AATCTGGACAGTGCGACAACCAAAAGAAGTCCTTG-TGAGACTAAGAAGAAAAACTGTGATCTTT
1 AATCTGGACAGTGCAATGACTGAAAGAAG-CC-AGAGGAGACTAAGAAGAAAAACTGCGATCTTT
** * *
1003719 CTATAAACATTAAAGGGCGGAGCCAAGGCAGA
64 CTATAAACATTAAAGCACGGAGCAAACGCAGA
*
1003751 AATTTGGACAGTGCAATGACTGAAAGAAGC
1 AATCTGGACAGTGCAATGACTGAAAGAAGC
1003781 GGCAATGATA
Statistics
Matches: 101, Mismatches: 23, Indels: 5
0.78 0.18 0.04
Matches are distributed among these distances:
95 1 0.01
96 97 0.96
97 2 0.02
98 1 0.01
ACGTcount: A:0.39, C:0.17, G:0.25, T:0.19
Consensus pattern (95 bp):
AATCTGGACAGTGCAATGACTGAAAGAAGCCAGAGGAGACTAAGAAGAAAAACTGCGATCTTTCT
ATAAACATTAAAGCACGGAGCAAACGCAGA
Found at i:1007546 original size:83 final size:84
Alignment explanation
Indices: 1007452--1007611 Score: 250
Period size: 84 Copynumber: 1.9 Consensus size: 84
1007442 TCGCTCGGAC
* * * *
1007452 AATTGTCAGAGA-TATCCGGGCTGGGAATTTCTTTACTTTTCCCCGGGGTATAGCTTGACCTTTT
1 AATTGTCAGAGACCATCCGGGATGGGAATTTATTTACTTTTCCCCGGGGTATAACTTGACCTTTT
1007516 TGTATGCAACTTCATTTGG
66 TGTATGCAACTTCATTTGG
* * *
1007535 AATTGTTAGAGACCATCCGGGATGGGAATTTATTTATTTTTCCCCGGGGTCTAACTTGACCTTTT
1 AATTGTCAGAGACCATCCGGGATGGGAATTTATTTACTTTTCCCCGGGGTATAACTTGACCTTTT
1007600 TGTATGCAACTT
66 TGTATGCAACTT
1007612 TTGGAGCACA
Statistics
Matches: 69, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
83 11 0.16
84 58 0.84
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.39
Consensus pattern (84 bp):
AATTGTCAGAGACCATCCGGGATGGGAATTTATTTACTTTTCCCCGGGGTATAACTTGACCTTTT
TGTATGCAACTTCATTTGG
Found at i:1008361 original size:14 final size:14
Alignment explanation
Indices: 1008327--1008361 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
1008317 CCTCTGTTTT
1008327 AAAAAAATAATTAA
1 AAAAAAATAATTAA
* *
1008341 AACAAAATTATTAA
1 AAAAAAATAATTAA
1008355 AAAAAAA
1 AAAAAAA
1008362 AGAAAACAAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.77, C:0.03, G:0.00, T:0.20
Consensus pattern (14 bp):
AAAAAAATAATTAA
Found at i:1019789 original size:46 final size:46
Alignment explanation
Indices: 1019771--1019973 Score: 223
Period size: 46 Copynumber: 4.3 Consensus size: 46
1019761 TGACAAGTGG
* * *
1019771 AAAGTGATAAGTAATAGCT-TCGACTATACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTATAG-CTACACTTATCTGATCAAGTGAC
*
1019817 AAAGTGATAAGTGATAGCT-TCGGCTACACTTATCTGATCAAGTGAC
1 AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
* * *
1019863 AAGTGAAAAGTGATAAGTGATAGCT-TCGGCTATACTTATCTGATCAAGAGAC
1 ------AAAGTGATAAGTGATAGCTAT-AGCTACACTTATCTGATCAAGTGAC
* *
1019915 AAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGAC
1 AAAGTGATAAGTGATAGCTATAGCTACACTTATCTGATCAAGTGAC
1019961 AAAGTGATAAGTG
1 AAAGTGATAAGTG
1019974 GCTACACTTA
Statistics
Matches: 142, Mismatches: 7, Indels: 16
0.86 0.04 0.10
Matches are distributed among these distances:
46 96 0.68
47 2 0.01
52 44 0.31
ACGTcount: A:0.36, C:0.14, G:0.21, T:0.28
Consensus pattern (46 bp):
AAAGTGATAAGTGATAGCTATAGCTACACTTATCTGATCAAGTGAC
Found at i:1019825 original size:98 final size:98
Alignment explanation
Indices: 1019705--1019973 Score: 448
Period size: 98 Copynumber: 2.7 Consensus size: 98
1019695 TTTGAGTACT
*
1019705 TCTGATCAAGTGACAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
*
1019770 GAAAGTGATAAGTAATAGCTTCGACTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGACTATACTTA
**
1019803 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
* *
1019868 AAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 AAAAGTGATAAGTAATAGCTTCGACTATACTTA
* *
1019901 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGAC-AAGT
*
1019966 GATAAGTG
65 GAAAAGTG
1019974 GCTACACTTA
Statistics
Matches: 159, Mismatches: 11, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
98 148 0.93
99 11 0.07
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.28
Consensus pattern (98 bp):
TCTGATCAAGTGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
AAAAGTGATAAGTAATAGCTTCGACTATACTTA
Found at i:1019981 original size:37 final size:37
Alignment explanation
Indices: 1019937--1020082 Score: 242
Period size: 37 Copynumber: 4.0 Consensus size: 37
1019927 GATAGCTTTA
*
1019937 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1019974 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
*
1020011 GCTACACTTATCTGATCAAGAAACAAAGTGATAGGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
**
1020048 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1020083 ATCATACGTA
Statistics
Matches: 104, Mismatches: 5, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
35 11 0.11
36 4 0.04
37 89 0.86
ACGTcount: A:0.37, C:0.16, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
Found at i:1021639 original size:30 final size:29
Alignment explanation
Indices: 1021567--1021645 Score: 72
Period size: 30 Copynumber: 2.6 Consensus size: 29
1021557 ATTTAGGTTC
* *
1021567 TAATTAAAATTTTTAAAAATTTTATGAGAT
1 TAATTAATATTTTTAAA-ATTTTAAGAGAT
*
1021597 TAA-TGATAATTTTT-AAATTTTAAGAGAACT
1 TAATTAAT-ATTTTTAAAATTTTAAGAG-A-T
1021627 TAATTAATATTTTTGAAAA
1 TAATTAATATTTTT-AAAA
1021646 ACAGAAAGGA
Statistics
Matches: 39, Mismatches: 4, Indels: 10
0.74 0.08 0.19
Matches are distributed among these distances:
28 9 0.23
29 5 0.13
30 19 0.49
31 3 0.08
32 3 0.08
ACGTcount: A:0.46, C:0.01, G:0.08, T:0.46
Consensus pattern (29 bp):
TAATTAATATTTTTAAAATTTTAAGAGAT
Found at i:1029558 original size:23 final size:23
Alignment explanation
Indices: 1029514--1029561 Score: 62
Period size: 23 Copynumber: 2.1 Consensus size: 23
1029504 AAATCACGAT
1029514 TATAATCAAATAATAATTATTCA
1 TATAATCAAATAATAATTATTCA
* *
1029537 TATAAT-AAATTATATTTAATTCA
1 TATAATCAAATAATAATT-ATTCA
1029560 TA
1 TA
1029562 ATACTTGGGG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
22 9 0.41
23 13 0.59
ACGTcount: A:0.50, C:0.06, G:0.00, T:0.44
Consensus pattern (23 bp):
TATAATCAAATAATAATTATTCA
Found at i:1040808 original size:15 final size:15
Alignment explanation
Indices: 1040759--1040810 Score: 52
Period size: 15 Copynumber: 3.4 Consensus size: 15
1040749 TTTAAAATAT
1040759 ATTTATATTGTT-TTA
1 ATTTATATT-TTATTA
* *
1040774 ATTTAATATTTAATAA
1 ATTT-ATATTTTATTA
*
1040790 ATTTATATTTTATTT
1 ATTTATATTTTATTA
1040805 ATTTAT
1 ATTTAT
1040811 TAAAATTATA
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
15 19 0.63
16 11 0.37
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (15 bp):
ATTTATATTTTATTA
Found at i:1042893 original size:18 final size:18
Alignment explanation
Indices: 1042870--1042905 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
1042860 TTGGTCCTCC
1042870 ATTTTCTTTTTAATTTTT
1 ATTTTCTTTTTAATTTTT
1042888 ATTTTCTTTTTAATTTTT
1 ATTTTCTTTTTAATTTTT
1042906 CGTATTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.17, C:0.06, G:0.00, T:0.78
Consensus pattern (18 bp):
ATTTTCTTTTTAATTTTT
Found at i:1043266 original size:77 final size:77
Alignment explanation
Indices: 1043171--1043313 Score: 225
Period size: 77 Copynumber: 1.9 Consensus size: 77
1043161 TGAGCTGACG
* * * *
1043171 TGAGGATTAGGATCTAGTATGGAGTTT-GAAGAAATATATTGTTATTGAACTTTGTTTCTTCTTA
1 TGAGGATGAGGATATAGTAT-GAATTTCGAAGAAATATATAGTTATTGAACTTTGTTTCTTCTTA
1043235 GTTGTAACTAGCT
65 GTTGTAACTAGCT
*
1043248 TGAGGATGAGGATATAGTATGAATTTCGAAGAAATATATAGTTGTTGAACTTTGTTTCTTCTTAG
1 TGAGGATGAGGATATAGTATGAATTTCGAAGAAATATATAGTTATTGAACTTTGTTTCTTCTTAG
1043313 T
66 T
1043314 GCTAACAAGC
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
76 5 0.08
77 55 0.92
ACGTcount: A:0.29, C:0.07, G:0.22, T:0.42
Consensus pattern (77 bp):
TGAGGATGAGGATATAGTATGAATTTCGAAGAAATATATAGTTATTGAACTTTGTTTCTTCTTAG
TTGTAACTAGCT
Found at i:1047865 original size:15 final size:15
Alignment explanation
Indices: 1047847--1047878 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
1047837 TCTTTTTGCC
1047847 TTTTTAGAAAGAACA
1 TTTTTAGAAAGAACA
1047862 TTTTTAGAAAGAACA
1 TTTTTAGAAAGAACA
1047877 TT
1 TT
1047879 GTAACTATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.44, C:0.06, G:0.12, T:0.38
Consensus pattern (15 bp):
TTTTTAGAAAGAACA
Found at i:1047952 original size:40 final size:40
Alignment explanation
Indices: 1047906--1048010 Score: 165
Period size: 42 Copynumber: 2.6 Consensus size: 40
1047896 TCTAGGATAT
1047906 CTACGTGTTTATTTATAAGCTTTTCCTTTAAGATATATGC
1 CTACGTGTTTATTTATAAGCTTTTCCTTTAAGATATATGC
*
1047946 CTACGTGTATTTATTTATAAGCTTTTCCTTTAAGATATATGT
1 CTACGTG--TTTATTTATAAGCTTTTCCTTTAAGATATATGC
* *
1047988 CTACGTGTTTGTTCATAAGCTTT
1 CTACGTGTTTATTTATAAGCTTT
1048011 ATATCTACGT
Statistics
Matches: 60, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
40 21 0.35
42 39 0.65
ACGTcount: A:0.24, C:0.14, G:0.13, T:0.49
Consensus pattern (40 bp):
CTACGTGTTTATTTATAAGCTTTTCCTTTAAGATATATGC
Found at i:1052011 original size:42 final size:42
Alignment explanation
Indices: 1051964--1052049 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
1051954 GAGTGCGTTC
1051964 ATTTGTGTGTGGTTGATGACGCGGTTAAGAATGATGAGATCT
1 ATTTGTGTGTGGTTGATGACGCGGTTAAGAATGATGAGATCT
1052006 ATTTGTGTGTGGTTGATGACGCGGTTAAGAATGATGAGATCT
1 ATTTGTGTGTGGTTGATGACGCGGTTAAGAATGATGAGATCT
1052048 AT
1 AT
1052050 GAATATCCGA
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.24, C:0.07, G:0.33, T:0.36
Consensus pattern (42 bp):
ATTTGTGTGTGGTTGATGACGCGGTTAAGAATGATGAGATCT
Found at i:1056394 original size:51 final size:50
Alignment explanation
Indices: 1056334--1056454 Score: 136
Period size: 51 Copynumber: 2.4 Consensus size: 50
1056324 TTGCCTTAAA
*
1056334 ATTTACACATTCTGTCAATTTTGTCCTGATTAAACAAATTTAACTCATAAT
1 ATTTACACATTCTGTCAATTTTATCCTGATTAAACAAATTTAAC-CATAAT
* * * * *
1056385 ATTTACACATT-TCGCCCATTTTATTCTGATTTAACAAATTTAACCTTAAT
1 ATTTACACATTCT-GTCAATTTTATCCTGATTAAACAAATTTAACCATAAT
*
1056435 ATTTATACATATCATGTCAA
1 ATTTACACAT-TC-TGTCAA
1056455 CATTTACACG
Statistics
Matches: 57, Mismatches: 9, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
50 15 0.26
51 38 0.67
52 3 0.05
53 1 0.02
ACGTcount: A:0.35, C:0.18, G:0.05, T:0.42
Consensus pattern (50 bp):
ATTTACACATTCTGTCAATTTTATCCTGATTAAACAAATTTAACCATAAT
Found at i:1064199 original size:13 final size:14
Alignment explanation
Indices: 1064183--1064218 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
1064173 CAATCTCATA
1064183 TCTCAATTTCAA-T
1 TCTCAATTTCAATT
1064196 TCTCAA-TTCAATT
1 TCTCAATTTCAATT
1064209 TCTC-ATTTCA
1 TCTCAATTTCA
1064219 TTCCAATAGC
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
12 6 0.29
13 15 0.71
ACGTcount: A:0.28, C:0.25, G:0.00, T:0.47
Consensus pattern (14 bp):
TCTCAATTTCAATT
Found at i:1064208 original size:18 final size:19
Alignment explanation
Indices: 1064170--1064210 Score: 59
Period size: 18 Copynumber: 2.2 Consensus size: 19
1064160 TGGTTCATGT
1064170 TTTCAATCTCATATCTCAA
1 TTTCAATCTCATATCTCAA
1064189 TTTCAATTCTCA-AT-TCAA
1 TTTCAA-TCTCATATCTCAA
1064207 TTTC
1 TTTC
1064211 TCATTTCATT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
18 8 0.38
19 8 0.38
20 5 0.24
ACGTcount: A:0.29, C:0.24, G:0.00, T:0.46
Consensus pattern (19 bp):
TTTCAATCTCATATCTCAA
Found at i:1064875 original size:15 final size:15
Alignment explanation
Indices: 1064857--1064906 Score: 73
Period size: 15 Copynumber: 3.3 Consensus size: 15
1064847 ATATATATAT
1064857 TATAATTTCAATCAA
1 TATAATTTCAATCAA
*
1064872 TATAAATTCAATCAA
1 TATAATTTCAATCAA
* *
1064887 AATGATTTCAATCAA
1 TATAATTTCAATCAA
1064902 TATAA
1 TATAA
1064907 ATTTGATAAA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 29 1.00
ACGTcount: A:0.50, C:0.12, G:0.02, T:0.36
Consensus pattern (15 bp):
TATAATTTCAATCAA
Found at i:1065680 original size:15 final size:15
Alignment explanation
Indices: 1065641--1065687 Score: 58
Period size: 15 Copynumber: 2.9 Consensus size: 15
1065631 CCTGTTTCTT
1065641 CTCTGTTTCGTTTCCA
1 CTCTGTTTC-TTTCCA
*
1065657 CATTCTGTTTCTTTTCA
1 C--TCTGTTTCTTTCCA
1065674 CTCTGTTTCTTTCC
1 CTCTGTTTCTTTCC
1065688 TTTATTTCCT
Statistics
Matches: 27, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
15 12 0.44
16 1 0.04
17 6 0.22
18 8 0.30
ACGTcount: A:0.06, C:0.30, G:0.09, T:0.55
Consensus pattern (15 bp):
CTCTGTTTCTTTCCA
Found at i:1068624 original size:17 final size:18
Alignment explanation
Indices: 1068602--1068638 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
1068592 TAATTTTATA
*
1068602 TTATTTATATAAAA-AAC
1 TTATTTAAATAAAATAAC
1068619 TTATTTAAATAAAATAAC
1 TTATTTAAATAAAATAAC
1068637 TT
1 TT
1068639 TTGTTTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 13 0.72
18 5 0.28
ACGTcount: A:0.51, C:0.05, G:0.00, T:0.43
Consensus pattern (18 bp):
TTATTTAAATAAAATAAC
Found at i:1083614 original size:4 final size:4
Alignment explanation
Indices: 1083605--1083629 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
1083595 AACACACTCC
1083605 ATGT ATGT ATGT ATGT ATGT ATGT A
1 ATGT ATGT ATGT ATGT ATGT ATGT A
1083630 CGAACGAACG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.28, C:0.00, G:0.24, T:0.48
Consensus pattern (4 bp):
ATGT
Found at i:1085155 original size:10 final size:10
Alignment explanation
Indices: 1085137--1085171 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
1085127 TTTTGACTTT
*
1085137 ATTAGGTAAC
1 ATTATGTAAC
1085147 ATTATGTAAC
1 ATTATGTAAC
*
1085157 ATTTTGTAAC
1 ATTATGTAAC
1085167 ATTAT
1 ATTAT
1085172 CATAGTGATT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.37, C:0.09, G:0.11, T:0.43
Consensus pattern (10 bp):
ATTATGTAAC
Found at i:1095806 original size:23 final size:23
Alignment explanation
Indices: 1095777--1095822 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
1095767 TTTAGAGCAT
1095777 ATAAACTCGATAAGGAGTAAGAC
1 ATAAACTCGATAAGGAGTAAGAC
1095800 ATAAACTCGATAAGGAGTAAGAC
1 ATAAACTCGATAAGGAGTAAGAC
1095823 GAGGCATATT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.13, G:0.22, T:0.17
Consensus pattern (23 bp):
ATAAACTCGATAAGGAGTAAGAC
Found at i:1099153 original size:19 final size:19
Alignment explanation
Indices: 1099131--1099213 Score: 69
Period size: 19 Copynumber: 4.2 Consensus size: 19
1099121 ACAAATATTA
1099131 AAAAAATC-AAAATAAATTT
1 AAAAAATCTAAAA-AAATTT
* *
1099150 AAAATATCTATAAAAATTT
1 AAAAAATCTAAAAAAATTT
* * *
1099169 AAAAAATCTAGAAAACTCT
1 AAAAAATCTAAAAAAATTT
*
1099188 AATAAATATTTAAAGAAAATTT
1 AA-AAA-ATCTAAA-AAAATTT
1099210 AAAA
1 AAAA
1099214 TAATAATTTT
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
19 30 0.60
20 6 0.12
21 7 0.14
22 7 0.14
ACGTcount: A:0.63, C:0.06, G:0.02, T:0.29
Consensus pattern (19 bp):
AAAAAATCTAAAAAAATTT
Found at i:1100637 original size:21 final size:20
Alignment explanation
Indices: 1100590--1100634 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
1100580 TTTAACTAGC
1100590 ATTTAATTATTTAATTAAAAA
1 ATTTAATTA-TTAATTAAAAA
*
1100611 AATTAATTA-TAATTTAAAAA
1 ATTTAATTATTAA-TTAAAAA
1100631 ATTT
1 ATTT
1100635 TAAAAATGTG
Statistics
Matches: 21, Mismatches: 2, Indels: 3
0.81 0.08 0.12
Matches are distributed among these distances:
19 3 0.14
20 10 0.48
21 8 0.38
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (20 bp):
ATTTAATTATTAATTAAAAA
Found at i:1101960 original size:15 final size:15
Alignment explanation
Indices: 1101922--1101963 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
1101912 TTATAAATAT
1101922 TTTTTATA-TTTTAA
1 TTTTTATATTTTTAA
*
1101936 -TTTGATTATTTTTAA
1 TTTTTA-TATTTTTAA
1101951 TTTTTATATTTTT
1 TTTTTATATTTTT
1101964 TAAATATCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 5
0.77 0.07 0.17
Matches are distributed among these distances:
13 4 0.17
14 2 0.09
15 13 0.57
16 4 0.17
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (15 bp):
TTTTTATATTTTTAA
Found at i:1102064 original size:138 final size:138
Alignment explanation
Indices: 1101908--1102171 Score: 474
Period size: 138 Copynumber: 1.9 Consensus size: 138
1101898 ATGAATATAA
* * *
1101908 AATGTTATAAATATTTTTTATATTTTAATTTGATTATTTTTAATTTTTATATTTTTTAAATATCC
1 AATGTTATAAATAATTTTTATATTTTAATTTAATCATTTTTAATTTTTATATTTTTTAAATATCC
*
1101973 AGTCTCATCAAACAATAATTGTTAAATAAATTAAATTAAGCTCAGTTATTTACAAAATATGGAGT
66 AATCTCATCAAACAATAATTGTTAAATAAATTAAATTAAGCTCAGTTATTTACAAAATATGGAGT
1102038 ACTTTATG
131 ACTTTATG
1102046 AATGTTATAAATAATTTTTATATTTTAATTTAATCATTTTTAATTTTTATATTTTTTAAATATCC
1 AATGTTATAAATAATTTTTATATTTTAATTTAATCATTTTTAATTTTTATATTTTTTAAATATCC
* *
1102111 AATCTCATCAAACAATAATTGTTAAATTAATTAAGTTAAGCTCAGTTATTTACAAAATATG
66 AATCTCATCAAACAATAATTGTTAAATAAATTAAATTAAGCTCAGTTATTTACAAAATATG
1102172 TTACTCCAAA
Statistics
Matches: 120, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
138 120 1.00
ACGTcount: A:0.39, C:0.08, G:0.06, T:0.48
Consensus pattern (138 bp):
AATGTTATAAATAATTTTTATATTTTAATTTAATCATTTTTAATTTTTATATTTTTTAAATATCC
AATCTCATCAAACAATAATTGTTAAATAAATTAAATTAAGCTCAGTTATTTACAAAATATGGAGT
ACTTTATG
Found at i:1102099 original size:15 final size:15
Alignment explanation
Indices: 1102057--1102101 Score: 58
Period size: 15 Copynumber: 3.1 Consensus size: 15
1102047 ATGTTATAAA
1102057 TAATTTTTATA-TTT
1 TAATTTTTATATTTT
*
1102071 TAA-TTTAATCATTTT
1 TAATTTTTAT-ATTTT
1102086 TAATTTTTATATTTT
1 TAATTTTTATATTTT
1102101 T
1 T
1102102 TAAATATCCA
Statistics
Matches: 26, Mismatches: 2, Indels: 5
0.79 0.06 0.15
Matches are distributed among these distances:
13 5 0.19
14 4 0.15
15 12 0.46
16 5 0.19
ACGTcount: A:0.29, C:0.02, G:0.00, T:0.69
Consensus pattern (15 bp):
TAATTTTTATATTTT
Found at i:1105123 original size:23 final size:23
Alignment explanation
Indices: 1105091--1105147 Score: 62
Period size: 23 Copynumber: 2.5 Consensus size: 23
1105081 ACTATAAAAA
*
1105091 TATAAATTAATATGTAATAAAA-T
1 TATAATTTAATATGTAA-AAAATT
* * *
1105114 TATATTTTAATCTTTAAAAAATT
1 TATAATTTAATATGTAAAAAATT
1105137 TATAATTTAAT
1 TATAATTTAAT
1105148 TTCCACCTAA
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
22 4 0.14
23 24 0.86
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (23 bp):
TATAATTTAATATGTAAAAAATT
Found at i:1111300 original size:48 final size:48
Alignment explanation
Indices: 1111244--1111339 Score: 174
Period size: 48 Copynumber: 2.0 Consensus size: 48
1111234 TCTCTTAATG
*
1111244 TACTCGCAGTGCCATTTTCCGAGCCTATTTCTTTCTTCTCCAACCCAA
1 TACTCGCAGTGCCATTTTCCGAACCTATTTCTTTCTTCTCCAACCCAA
*
1111292 TACTCGCAGTGCCATTTTCCGAACTTATTTCTTTCTTCTCCAACCCAA
1 TACTCGCAGTGCCATTTTCCGAACCTATTTCTTTCTTCTCCAACCCAA
1111340 CAACATCTCC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 46 1.00
ACGTcount: A:0.20, C:0.34, G:0.09, T:0.36
Consensus pattern (48 bp):
TACTCGCAGTGCCATTTTCCGAACCTATTTCTTTCTTCTCCAACCCAA
Found at i:1133242 original size:23 final size:22
Alignment explanation
Indices: 1133209--1133252 Score: 70
Period size: 23 Copynumber: 2.0 Consensus size: 22
1133199 TAAAATAAAT
1133209 AAAAATAAAAATATTAAAATAC
1 AAAAATAAAAATATTAAAATAC
*
1133231 AAAAATACAAAATTTTAAAATA
1 AAAAATA-AAAATATTAAAATA
1133253 TTAATTTTGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 7 0.35
23 13 0.65
ACGTcount: A:0.70, C:0.05, G:0.00, T:0.25
Consensus pattern (22 bp):
AAAAATAAAAATATTAAAATAC
Found at i:1142328 original size:31 final size:31
Alignment explanation
Indices: 1142290--1142355 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
1142280 AACAATCTAG
*
1142290 TGACTTAAATAAAAACTTTCGAATAATTCAA
1 TGACTTAAACAAAAACTTTCGAATAATTCAA
* * * *
1142321 TGACTTAAACGAAAACTTTTGAATAGTTTAA
1 TGACTTAAACAAAAACTTTCGAATAATTCAA
1142352 TGAC
1 TGAC
1142356 CATTTTGTAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.44, C:0.12, G:0.11, T:0.33
Consensus pattern (31 bp):
TGACTTAAACAAAAACTTTCGAATAATTCAA
Found at i:1146347 original size:167 final size:168
Alignment explanation
Indices: 1146064--1146395 Score: 474
Period size: 168 Copynumber: 2.0 Consensus size: 168
1146054 AGCCAAAGGG
* * * *
1146064 TCCCTTTGCTAAATAGAAAAATTCTTTATGGCTCCTCCTCGAAATTAAAAAAAATTCAATTTAGT
1 TCCCTTGGCTAAATAGAAAAATTCTTTATAGCCCCTCCTCAAAATTAAAAAAAATTCAATTTAGT
* *
1146129 CTTTTTTAACCATTGATTAAATAAAAAATTTATAATTTAGCCCTTTTG-AAAATTAATAATTTAA
66 CTTTTTTAACCATTGAATAAATAAAAAAATTATAATTTAGCCCTTTTGAAAAATTAATAATTTAA
*
1146193 TTTAAAGTATTTTTAATACAAGAATTTTAGCTTTGCCC
131 TTTAAAGCATTTTTAATACAAGAATTTTAGCTTTGCCC
* * * *
1146231 TCCCTTGGCTAAATGGAAAATTTGCTTTATATCCCCTCC-CAAAATTAAAAAAGA-TCAATTTAG
1 TCCCTTGGCTAAATAGAAAAATT-CTTTATAGCCCCTCCTCAAAATTAAAAAAAATTCAATTTAG
* *
1146294 TAC-TTTTTAATCTTTGAATAAATAAAAAAATTATAATTTTAGCCCTTTTGAAAAATTAATAATT
65 T-CTTTTTTAACCATTGAATAAATAAAAAAATTATAA-TTTAGCCCTTTTGAAAAATTAATAATT
* *
1146358 TAATTTCAAGCATTTTTAATGCAAGAATTTTAGCTTTG
128 TAATTTAAAGCATTTTTAATACAAGAATTTTAGCTTTG
1146396 GTCCCCCAAA
Statistics
Matches: 146, Mismatches: 15, Indels: 7
0.87 0.09 0.04
Matches are distributed among these distances:
166 39 0.27
167 47 0.32
168 60 0.41
ACGTcount: A:0.38, C:0.14, G:0.08, T:0.40
Consensus pattern (168 bp):
TCCCTTGGCTAAATAGAAAAATTCTTTATAGCCCCTCCTCAAAATTAAAAAAAATTCAATTTAGT
CTTTTTTAACCATTGAATAAATAAAAAAATTATAATTTAGCCCTTTTGAAAAATTAATAATTTAA
TTTAAAGCATTTTTAATACAAGAATTTTAGCTTTGCCC
Found at i:1148356 original size:52 final size:52
Alignment explanation
Indices: 1148278--1148382 Score: 183
Period size: 52 Copynumber: 2.0 Consensus size: 52
1148268 TCATCCTAAA
* *
1148278 ACATCATGCCACTATCACTGTCAAGGGTATCAAATTAGACTTCCATGTTAGC
1 ACATCATGCCACTATCACTGTCAAGGGTATCAAATTAAACTTCCATATTAGC
*
1148330 ACATCATGCCACTATCACTGTCAAGGGTATCAAATTAAACTTTCATATTAGC
1 ACATCATGCCACTATCACTGTCAAGGGTATCAAATTAAACTTCCATATTAGC
1148382 A
1 A
1148383 ATCTTGGGAC
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.33, C:0.24, G:0.13, T:0.30
Consensus pattern (52 bp):
ACATCATGCCACTATCACTGTCAAGGGTATCAAATTAAACTTCCATATTAGC
Found at i:1153525 original size:43 final size:43
Alignment explanation
Indices: 1153476--1153561 Score: 147
Period size: 43 Copynumber: 2.0 Consensus size: 43
1153466 CATAATAATT
*
1153476 AATTTTCTCTTTTTTTAAATAGAA-AAAATAAAATACAATCTAA
1 AATTTTCTCTATTTTTAAATA-AAGAAAATAAAATACAATCTAA
1153519 AATTTTCTCTATTTTTAAATAAAGAAAATAAAATACAATCTAA
1 AATTTTCTCTATTTTTAAATAAAGAAAATAAAATACAATCTAA
1153562 CTCCTACTAT
Statistics
Matches: 41, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
42 2 0.05
43 39 0.95
ACGTcount: A:0.50, C:0.09, G:0.02, T:0.38
Consensus pattern (43 bp):
AATTTTCTCTATTTTTAAATAAAGAAAATAAAATACAATCTAA
Found at i:1158518 original size:31 final size:30
Alignment explanation
Indices: 1158478--1158564 Score: 86
Period size: 31 Copynumber: 2.8 Consensus size: 30
1158468 AAATTCTAAA
* * *
1158478 TTAATAATAATAAAATTATACTTTGACCTCT
1 TTAAAAATAATAAAATTATAATTT-AACTCT
*
1158509 TTAAAAATAATAAAAATT-TAATTTAATTCT
1 TTAAAAATAAT-AAAATTATAATTTAACTCT
* *
1158539 TTAAAAATTATAAAAATATAAATTTA
1 TTAAAAATAATAAAATTAT-AATTTA
1158565 TAAAATTATA
Statistics
Matches: 47, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
29 5 0.11
30 15 0.32
31 21 0.45
32 6 0.13
ACGTcount: A:0.52, C:0.06, G:0.01, T:0.41
Consensus pattern (30 bp):
TTAAAAATAATAAAATTATAATTTAACTCT
Found at i:1158542 original size:30 final size:31
Alignment explanation
Indices: 1158506--1158564 Score: 93
Period size: 30 Copynumber: 1.9 Consensus size: 31
1158496 TACTTTGACC
*
1158506 TCTTTAAAAATAATAAAAAT-TTAATTTAAT
1 TCTTTAAAAATAATAAAAATATAAATTTAAT
*
1158536 TCTTTAAAAATTATAAAAATATAAATTTA
1 TCTTTAAAAATAATAAAAATATAAATTTA
1158565 TAAAATTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
30 19 0.73
31 7 0.27
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.42
Consensus pattern (31 bp):
TCTTTAAAAATAATAAAAATATAAATTTAAT
Found at i:1158553 original size:8 final size:8
Alignment explanation
Indices: 1158542--1158581 Score: 62
Period size: 8 Copynumber: 5.0 Consensus size: 8
1158532 TAATTCTTTA
1158542 AAAATTAT
1 AAAATTAT
*
1158550 AAAAATAT
1 AAAATTAT
*
1158558 AAATTTAT
1 AAAATTAT
1158566 AAAATTAT
1 AAAATTAT
1158574 AAAATTAT
1 AAAATTAT
1158582 TTTTTTACTA
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 28 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
AAAATTAT
Found at i:1163013 original size:39 final size:39
Alignment explanation
Indices: 1162964--1163040 Score: 136
Period size: 39 Copynumber: 2.0 Consensus size: 39
1162954 ACAGGTGTCA
*
1162964 TGTGACCAGGCTGGGTCAAATTTGTCTGGTTCAAATTCT
1 TGTGAACAGGCTGGGTCAAATTTGTCTGGTTCAAATTCT
*
1163003 TGTGAACAGGCTGGGTCAAGTTTGTCTGGTTCAAATTC
1 TGTGAACAGGCTGGGTCAAATTTGTCTGGTTCAAATTC
1163041 ATCCAGCTCT
Statistics
Matches: 36, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 36 1.00
ACGTcount: A:0.21, C:0.17, G:0.27, T:0.35
Consensus pattern (39 bp):
TGTGAACAGGCTGGGTCAAATTTGTCTGGTTCAAATTCT
Found at i:1167389 original size:26 final size:26
Alignment explanation
Indices: 1167341--1167391 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
1167331 ATTTAATGTT
*
1167341 TAATTTCATATATATATTATTTTATG
1 TAATTTCATATATAAATTATTTTATG
*
1167367 TAATTTTATATATTAAATT-TTTTAT
1 TAATTTCATATA-TAAATTATTTTAT
1167392 TTGATTCAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
26 17 0.77
27 5 0.23
ACGTcount: A:0.35, C:0.02, G:0.02, T:0.61
Consensus pattern (26 bp):
TAATTTCATATATAAATTATTTTATG
Found at i:1172967 original size:59 final size:58
Alignment explanation
Indices: 1172857--1173003 Score: 156
Period size: 59 Copynumber: 2.5 Consensus size: 58
1172847 ACTTAATATT
* * *
1172857 TTTTTCTAATTTGGTACCTAAT-TTTTTTGGGTCCTATTTGGTACTCAAACTTGA-TAC
1 TTTTTCTAATTTGGTACCTAATCTTTTTTGGGTCCAATTTAGTACTCAAACTTAACT-C
* * * * *
1172914 TTTTTCTTAAGTTGGTACTTAATCTTTTTTGGGTTCAATTTATTAC-CTGAACTTAACTC
1 TTTTTC-TAATTTGGTACCTAATCTTTTTTGGGTCCAATTTAGTACTC-AAACTTAACTC
1172973 TTTTTCCTAATTTGGTACCTAATCATTTTTT
1 TTTTT-CTAATTTGGTACCTAATC-TTTTTT
1173004 TTGTTTGATT
Statistics
Matches: 74, Mismatches: 10, Indels: 9
0.80 0.11 0.10
Matches are distributed among these distances:
57 6 0.08
58 15 0.20
59 45 0.61
60 8 0.11
ACGTcount: A:0.21, C:0.16, G:0.12, T:0.52
Consensus pattern (58 bp):
TTTTTCTAATTTGGTACCTAATCTTTTTTGGGTCCAATTTAGTACTCAAACTTAACTC
Found at i:1182501 original size:37 final size:37
Alignment explanation
Indices: 1182451--1182525 Score: 150
Period size: 37 Copynumber: 2.0 Consensus size: 37
1182441 AATCAGTCAA
1182451 ATTTGATAATTTTTTTAAAAGAAAATTGAGAGGATCG
1 ATTTGATAATTTTTTTAAAAGAAAATTGAGAGGATCG
1182488 ATTTGATAATTTTTTTAAAAGAAAATTGAGAGGATCG
1 ATTTGATAATTTTTTTAAAAGAAAATTGAGAGGATCG
1182525 A
1 A
1182526 AATGATGTTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 38 1.00
ACGTcount: A:0.41, C:0.03, G:0.19, T:0.37
Consensus pattern (37 bp):
ATTTGATAATTTTTTTAAAAGAAAATTGAGAGGATCG
Found at i:1182538 original size:37 final size:37
Alignment explanation
Indices: 1182454--1182542 Score: 142
Period size: 37 Copynumber: 2.4 Consensus size: 37
1182444 CAGTCAAATT
**
1182454 TGATAATTTTTTTAAAAGAAAATTGAGAGGATCGATT
1 TGATAATTTTTTTAAAAGAAAATTGAGAGGATCGAAA
1182491 TGATAATTTTTTTAAAAGAAAATTGAGAGGATCGAAA
1 TGATAATTTTTTTAAAAGAAAATTGAGAGGATCGAAA
**
1182528 TGATGTTTTTTTTAA
1 TGATAATTTTTTTAA
1182543 TGAGAATATT
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
37 48 1.00
ACGTcount: A:0.39, C:0.02, G:0.18, T:0.40
Consensus pattern (37 bp):
TGATAATTTTTTTAAAAGAAAATTGAGAGGATCGAAA
Found at i:1183486 original size:12 final size:12
Alignment explanation
Indices: 1183442--1183496 Score: 53
Period size: 12 Copynumber: 4.8 Consensus size: 12
1183432 TAATAATTTT
*
1183442 ATATAAATATAA
1 ATATTAATATAA
* *
1183454 GT-TTAAT-TAT
1 ATATTAATATAA
1183464 ATATT-ATATAA
1 ATATTAATATAA
*
1183475 ATTTTAATATAA
1 ATATTAATATAA
1183487 ATATTAATAT
1 ATATTAATAT
1183497 GATAAAATGA
Statistics
Matches: 33, Mismatches: 7, Indels: 6
0.72 0.15 0.13
Matches are distributed among these distances:
10 5 0.15
11 12 0.36
12 16 0.48
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.47
Consensus pattern (12 bp):
ATATTAATATAA
Found at i:1189403 original size:59 final size:59
Alignment explanation
Indices: 1189289--1189403 Score: 133
Period size: 59 Copynumber: 1.9 Consensus size: 59
1189279 TGAACTGTTT
* * * * *
1189289 TTTGTCCAAGTTCATCTTTGAACTTGACAATTGTTCCCACATGATGGCTTGAACTTCTA
1 TTTGTCCAAGTTAATCCTTGAACTTGACAATTGTTCCCACATGAGGGCCTAAACTTCTA
* * * *
1189348 TTTGTCTAAGTTAATCCTTGTACTTGATAATTGTTCTCACATTG-GGGCCTAAACTT
1 TTTGTCCAAGTTAATCCTTGAACTTGACAATTGTTCCCACA-TGAGGGCCTAAACTT
1189404 TTTTTTTATC
Statistics
Matches: 46, Mismatches: 9, Indels: 2
0.81 0.16 0.04
Matches are distributed among these distances:
59 44 0.96
60 2 0.04
ACGTcount: A:0.23, C:0.20, G:0.16, T:0.41
Consensus pattern (59 bp):
TTTGTCCAAGTTAATCCTTGAACTTGACAATTGTTCCCACATGAGGGCCTAAACTTCTA
Found at i:1197692 original size:19 final size:20
Alignment explanation
Indices: 1197668--1197723 Score: 60
Period size: 21 Copynumber: 2.7 Consensus size: 20
1197658 TTATTTACGT
*
1197668 ATTTAAAATATATA-AATTA
1 ATTTAAAATATATATAATAA
1197687 ATTTAAAAGTAATATATAATAA
1 ATTTAAAA-T-ATATATAATAA
*
1197709 ATAATAAAATATATA
1 AT-TTAAAATATATA
1197724 GTTTAAAATT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
19 8 0.26
20 1 0.03
21 10 0.32
22 7 0.23
23 5 0.16
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.38
Consensus pattern (20 bp):
ATTTAAAATATATATAATAA
Found at i:1198058 original size:3 final size:3
Alignment explanation
Indices: 1198050--1198078 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
1198040 TTAATCAAAT
1198050 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
1198079 TAAATATAAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:1200600 original size:17 final size:19
Alignment explanation
Indices: 1200559--1200602 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
1200549 ATACCATTAA
*
1200559 AAATAATATAATATATAAT
1 AAATAATAAAATATATAAT
*
1200578 ATATAATAAAAT-TAT-AT
1 AAATAATAAAATATATAAT
1200595 AAATAATA
1 AAATAATA
1200603 TTTTTTAGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
17 9 0.41
18 3 0.14
19 10 0.45
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (19 bp):
AAATAATAAAATATATAAT
Found at i:1201418 original size:3 final size:3
Alignment explanation
Indices: 1201410--1201462 Score: 88
Period size: 3 Copynumber: 17.3 Consensus size: 3
1201400 TAGTTAATCC
*
1201410 TAA TAA TAA TAA TAA TAA TAA TAA TAG TAA TAAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA T-AA TAA TAA TAA TAA
1201456 TAA TAA T
1 TAA TAA T
1201463 GTATAATATA
Statistics
Matches: 47, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
3 44 0.94
4 3 0.06
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (3 bp):
TAA
Found at i:1203178 original size:39 final size:39
Alignment explanation
Indices: 1203133--1203252 Score: 240
Period size: 39 Copynumber: 3.1 Consensus size: 39
1203123 GAATTGCATT
1203133 AAATGAAACGTAAATATTAAATTATTAGAAGAATAAAAA
1 AAATGAAACGTAAATATTAAATTATTAGAAGAATAAAAA
1203172 AAATGAAACGTAAATATTAAATTATTAGAAGAATAAAAA
1 AAATGAAACGTAAATATTAAATTATTAGAAGAATAAAAA
1203211 AAATGAAACGTAAATATTAAATTATTAGAAGAATAAAAA
1 AAATGAAACGTAAATATTAAATTATTAGAAGAATAAAAA
1203250 AAA
1 AAA
1203253 ATTCTTCCTA
Statistics
Matches: 81, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 81 1.00
ACGTcount: A:0.62, C:0.03, G:0.10, T:0.25
Consensus pattern (39 bp):
AAATGAAACGTAAATATTAAATTATTAGAAGAATAAAAA
Found at i:1204079 original size:19 final size:19
Alignment explanation
Indices: 1204055--1204093 Score: 69
Period size: 19 Copynumber: 2.1 Consensus size: 19
1204045 AGCTAAAACT
*
1204055 TAAAATTATTTAACTCAAA
1 TAAAATCATTTAACTCAAA
1204074 TAAAATCATTTAACTCAAA
1 TAAAATCATTTAACTCAAA
1204093 T
1 T
1204094 TAACTCGAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 19 1.00
ACGTcount: A:0.51, C:0.13, G:0.00, T:0.36
Consensus pattern (19 bp):
TAAAATCATTTAACTCAAA
Found at i:1204511 original size:25 final size:24
Alignment explanation
Indices: 1204475--1204522 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
1204465 ACAGCAACTT
*
1204475 CAAAAAATAAAACAATTAATAAAC
1 CAAAAAATAAAACAATAAATAAAC
* *
1204499 CAAAAATTAAAAATAATAAATAAA
1 CAAAAAAT-AAAACAATAAATAAA
1204523 TAATCAGATA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 7 0.35
25 13 0.65
ACGTcount: A:0.73, C:0.08, G:0.00, T:0.19
Consensus pattern (24 bp):
CAAAAAATAAAACAATAAATAAAC
Found at i:1207174 original size:75 final size:75
Alignment explanation
Indices: 1207062--1208031 Score: 927
Period size: 75 Copynumber: 13.0 Consensus size: 75
1207052 AACCAAACAC
* * * * ** * * ** * * *
1207062 CTAAATTTCCCGAGCCTGAACCCCAAGCTATATCTTGTGAACCCACTGCAATTGACGTTTTTGGT
1 CTAAATTTCCTGAACCTGAACCTCAAGCCATGCCTTGTGAACCTACTGGAATCAACATGTTTGGG
1207127 AAACAGGCTT
66 AAACAGGCTT
* * * ** * ** * *
1207137 CTAAATTTCCCGAGCATGAACCTCAAGTGATGCCTTGTGAATCTGGTGGAATCAAGATGTTTGGT
1 CTAAATTTCCTGAACCTGAACCTCAAGCCATGCCTTGTGAACCTACTGGAATCAACATGTTTGGG
*
1207202 AAGC-GGCCTT
66 AAACAGG-CTT
* * *
1207212 CTAAATTTCCTGAACCTGAAACTCAA-CCAATGACGTGTGAACCTACTGGAATCAACATGTTTGG
1 CTAAATTTCCTGAACCTGAACCTCAAGCC-ATGCCTTGTGAACCTACTGGAATCAACATGTTTGG
*
1207276 GAAACGGGCTT
65 GAAACAGGCTT
* * * *
1207287 CTAAATTTCCTGAACCTGAACCTCAAGGCATGCCTTGTGAACCTGCTGAAATCCACATGTTTGGG
1 CTAAATTTCCTGAACCTGAACCTCAAGCCATGCCTTGTGAACCTACTGGAATCAACATGTTTGGG
*
1207352 AAGCAGGCTT
66 AAACAGGCTT
* * * * * * * *
1207362 CTAAATTTGCTGAACCTGAACCTCGAGCCATACCTTGTGAACCCATTGGAATCGACGTGTTTGGA
1 CTAAATTTCCTGAACCTGAACCTCAAGCCATGCCTTGTGAACCTACTGGAATCAACATGTTTGGG
1207427 AAACAGGCTT
66 AAACAGGCTT
* * *
1207437 CTAAATTTCCCGAACCTGAACCTTTAAG-CATGCAC-TGTGAACCTGCTGGAATCAACATGTTT-
1 CTAAATTTCCTGAACCTGAACC-TCAAGCCATGC-CTTGTGAACCTACTGGAATCAACATGTTTG
1207499 GGAAAGCAGGCTT
64 GGAAA-CAGGCTT
* * * * *
1207512 CTAAATTTCCCGAACCTGAAACTCAACCCGTGCAC-TGTGAACCAACTGGAATCAACATGTTT-G
1 CTAAATTTCCTGAACCTGAACCTCAAGCCATGC-CTTGTGAACCTACTGGAATCAACATGTTTGG
1207575 GAAAGCAGGCTT
65 GAAA-CAGGCTT
* * * *
1207587 CTAAATTTCCTGAACCTGAAACTCAACCCATGCAC-TGTGAACCAACTGGAATCAACATTTTTGG
1 CTAAATTTCCTGAACCTGAACCTCAAGCCATGC-CTTGTGAACCTACTGGAATCAACATGTTTGG
*
1207651 GAAACAGGCTA
65 GAAACAGGCTT
* * * * *
1207662 CTAAATTTCCTGAACCCGAACCTCAAGCCATGCCTTGTGGACCAACAGGAATCAACATG-TTCGG
1 CTAAATTTCCTGAACCTGAACCTCAAGCCATGCCTTGTGAACCTACTGGAATCAACATGTTTGGG
* *
1207726 AAAGCAGCCAT
66 AAA-CAGGCTT
*
1207737 CTAAATTTCCTG-A-C----CCTCAAGCCATGCCTTGTGAATCC-ACTGGAATCAACAAT-TTCG
1 CTAAATTTCCTGAACCTGAACCTCAAGCCATGCCTTGTGAA-CCTACTGGAATCAAC-ATGTTTG
*
1207794 GGAAGCAGGCTT
64 GGAAACAGGCTT
* * * * **
1207806 CTAAATTTCCCGAACCTGAACTTCGAA-CCATGTCTTGCGAACCTACCAGAATCAACAT-TTTCG
1 CTAAATTTCCTGAACCTGAACCTC-AAGCCATGCCTTGTGAACCTACTGGAATCAACATGTTT-G
*
1207869 GGAAACAAGCTT
64 GGAAACAGGCTT
* * * * *
1207881 CTAAATTTCCTGAACCTGAACCTCAAACCATACCTTGTGAACCCACTGGACTTAACATGTTTGGG
1 CTAAATTTCCTGAACCTGAACCTCAAGCCATGCCTTGTGAACCTACTGGAATCAACATGTTTGGG
*
1207946 AAACAAGCTT
66 AAACAGGCTT
* * * * * *
1207956 CTAAGTTTCTTGAACCTGAACAC-CAAGCCATACCTTGTGAACTTACTGGACTCAACATGTTCGG
1 CTAAATTTCCTGAACCTGAAC-CTCAAGCCATGCCTTGTGAACCTACTGGAATCAACATGTTTGG
*
1208020 TAAACAGGCTT
65 GAAACAGGCTT
1208031 C
1 C
1208032 ATCTAGGCAA
Statistics
Matches: 751, Mismatches: 118, Indels: 52
0.82 0.13 0.06
Matches are distributed among these distances:
69 47 0.06
70 10 0.01
71 1 0.00
73 1 0.00
74 26 0.03
75 648 0.86
76 18 0.02
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (75 bp):
CTAAATTTCCTGAACCTGAACCTCAAGCCATGCCTTGTGAACCTACTGGAATCAACATGTTTGGG
AAACAGGCTT
Found at i:1229345 original size:53 final size:53
Alignment explanation
Indices: 1229282--1229388 Score: 214
Period size: 53 Copynumber: 2.0 Consensus size: 53
1229272 AATTAAAATT
1229282 TCATACTTCAGGGAAGGTAAATAAAATTGATGTATAACCATAGGAACAATGCC
1 TCATACTTCAGGGAAGGTAAATAAAATTGATGTATAACCATAGGAACAATGCC
1229335 TCATACTTCAGGGAAGGTAAATAAAATTGATGTATAACCATAGGAACAATGCC
1 TCATACTTCAGGGAAGGTAAATAAAATTGATGTATAACCATAGGAACAATGCC
1229388 T
1 T
1229389 AAAAATTAAG
Statistics
Matches: 54, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 54 1.00
ACGTcount: A:0.41, C:0.15, G:0.19, T:0.25
Consensus pattern (53 bp):
TCATACTTCAGGGAAGGTAAATAAAATTGATGTATAACCATAGGAACAATGCC
Found at i:1233924 original size:19 final size:20
Alignment explanation
Indices: 1233883--1233924 Score: 50
Period size: 20 Copynumber: 2.1 Consensus size: 20
1233873 TATTTTTTAA
**
1233883 TGATTTTTTTTAGAAATTTT
1 TGATTTTTTTTAGAAATGGT
*
1233903 TGATTTTTTTTA-CAATGGT
1 TGATTTTTTTTAGAAATGGT
1233922 TGA
1 TGA
1233925 ACCAGGGATT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
19 7 0.37
20 12 0.63
ACGTcount: A:0.24, C:0.02, G:0.14, T:0.60
Consensus pattern (20 bp):
TGATTTTTTTTAGAAATGGT
Found at i:1245757 original size:11 final size:9
Alignment explanation
Indices: 1245723--1245752 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
1245713 TTGAACCGGA
1245723 TTTT-ATAT
1 TTTTAATAT
1245731 TTTTAATAT
1 TTTTAATAT
1245740 TTTTAATAT
1 TTTTAATAT
1245749 TTTT
1 TTTT
1245753 TTAATTGAAA
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
8 4 0.19
9 17 0.81
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (9 bp):
TTTTAATAT
Found at i:1257268 original size:46 final size:46
Alignment explanation
Indices: 1257216--1257308 Score: 177
Period size: 46 Copynumber: 2.0 Consensus size: 46
1257206 TGAATGTTAG
1257216 TAATCTATGTAATTGAACTCACAACCTCATACAGAAAGGAGTGCAT
1 TAATCTATGTAATTGAACTCACAACCTCATACAGAAAGGAGTGCAT
*
1257262 TAATCTATGTAATTGAACTCACAACCTCATATAGAAAGGAGTGCAT
1 TAATCTATGTAATTGAACTCACAACCTCATACAGAAAGGAGTGCAT
1257308 T
1 T
1257309 CTGAGTTCAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.39, C:0.18, G:0.15, T:0.28
Consensus pattern (46 bp):
TAATCTATGTAATTGAACTCACAACCTCATACAGAAAGGAGTGCAT
Found at i:1264734 original size:18 final size:18
Alignment explanation
Indices: 1264711--1264782 Score: 90
Period size: 18 Copynumber: 4.0 Consensus size: 18
1264701 CCCAACTACT
1264711 GTATACGTGAACAGTACC
1 GTATACGTGAACAGTACC
* *
1264729 GTATACGTAAACAGTATC
1 GTATACGTGAACAGTACC
* *
1264747 GTATACGTGAATAGTGCC
1 GTATACGTGAACAGTACC
* *
1264765 ATATACGTGAATAGTACC
1 GTATACGTGAACAGTACC
1264783 ATAAACGGTC
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
18 46 1.00
ACGTcount: A:0.35, C:0.18, G:0.21, T:0.26
Consensus pattern (18 bp):
GTATACGTGAACAGTACC
Found at i:1266077 original size:13 final size:13
Alignment explanation
Indices: 1266059--1266083 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1266049 AATGCCTCTT
1266059 CATGCATTCAAGA
1 CATGCATTCAAGA
1266072 CATGCATTCAAG
1 CATGCATTCAAG
1266084 GAAAGTAAGA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.24, G:0.16, T:0.24
Consensus pattern (13 bp):
CATGCATTCAAGA
Found at i:1277435 original size:21 final size:21
Alignment explanation
Indices: 1277409--1277453 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1277399 AATTAAAAAT
*
1277409 TATTTAATATT-AAATATTAAA
1 TATTTAAAATTGAAATA-TAAA
*
1277430 TATTTAAAATTGGAATATAAA
1 TATTTAAAATTGAAATATAAA
1277451 TAT
1 TAT
1277454 CATAATCCCC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 17 0.81
22 4 0.19
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.44
Consensus pattern (21 bp):
TATTTAAAATTGAAATATAAA
Found at i:1277615 original size:21 final size:21
Alignment explanation
Indices: 1277574--1277632 Score: 59
Period size: 21 Copynumber: 2.9 Consensus size: 21
1277564 CTATATATTT
* *
1277574 ATATAATTAAAAATAAA--AA
1 ATATATTTAAAATTAAATTAA
1277593 ATATATTTAAAATTAAATTAA
1 ATATATTTAAAATTAAATTAA
* * *
1277614 ATCTATTTGAATTTAAATT
1 ATATATTTAAAATTAAATT
1277633 TGTCGAATCG
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
19 15 0.45
21 18 0.55
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (21 bp):
ATATATTTAAAATTAAATTAA
Found at i:1282503 original size:4 final size:4
Alignment explanation
Indices: 1282482--1282529 Score: 69
Period size: 4 Copynumber: 12.0 Consensus size: 4
1282472 GAAATTGAAT
* * *
1282482 TACA TACA TTCA TTCA TACA TACA TACA TACA TACA TATA TACA TACA
1 TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA TACA
1282530 GATCATAAAT
Statistics
Matches: 40, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
4 40 1.00
ACGTcount: A:0.46, C:0.23, G:0.00, T:0.31
Consensus pattern (4 bp):
TACA
Found at i:1284560 original size:18 final size:17
Alignment explanation
Indices: 1284524--1284563 Score: 50
Period size: 16 Copynumber: 2.5 Consensus size: 17
1284514 TAGTAAAAAT
1284524 ATAATTTTATCATTTTA
1 ATAATTTTATCATTTTA
1284541 ATAA-TTTAT-ATCTTT-
1 ATAATTTTATCAT-TTTA
1284556 ATAATTTT
1 ATAATTTT
1284564 TAAAGGATTA
Statistics
Matches: 21, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
15 6 0.29
16 11 0.52
17 4 0.19
ACGTcount: A:0.35, C:0.05, G:0.00, T:0.60
Consensus pattern (17 bp):
ATAATTTTATCATTTTA
Found at i:1286945 original size:22 final size:22
Alignment explanation
Indices: 1286914--1286957 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
1286904 TACACCAAAA
* *
1286914 TAGGCTTTTAGCGGCGCTTTTT
1 TAGGCCTTTAGCGACGCTTTTT
1286936 TAGGCCTTTAGCGACGCTTTTT
1 TAGGCCTTTAGCGACGCTTTTT
1286958 AGCGCCACTA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.11, C:0.20, G:0.25, T:0.43
Consensus pattern (22 bp):
TAGGCCTTTAGCGACGCTTTTT
Found at i:1287093 original size:43 final size:43
Alignment explanation
Indices: 1287029--1287191 Score: 245
Period size: 43 Copynumber: 3.8 Consensus size: 43
1287019 GCGTCGCTAA
* * *
1287029 CTTTAGCGGCGCTTTTTCCACAAACGCCACTAAAGACTAAGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGACCATGAC
*
1287072 CTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAAACCATGAC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGACCATGAC
* * *
1287115 CTTTAGCGGCGCTTTTACCACAAACGCCGCTAAAGACCATGGC
1 CTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGACCATGAC
* *
1287158 TTTTAGCGGCGCTTTTCCAACAAACGCCACTAAA
1 CTTTAGCGGCGCTTTTCCCACAAACGCCACTAAA
1287192 AATATATCTT
Statistics
Matches: 108, Mismatches: 12, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
43 108 1.00
ACGTcount: A:0.29, C:0.32, G:0.17, T:0.23
Consensus pattern (43 bp):
CTTTAGCGGCGCTTTTCCCACAAACGCCACTAAAGACCATGAC
Found at i:1290602 original size:14 final size:14
Alignment explanation
Indices: 1290583--1290619 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
1290573 TAAAACCCTA
*
1290583 AATCCCTAACTCCT
1 AATCCCTAACTCAT
1290597 AATCCCTAACTCAT
1 AATCCCTAACTCAT
*
1290611 AACCCCTAA
1 AATCCCTAA
1290620 ACCTTAAATC
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.35, C:0.41, G:0.00, T:0.24
Consensus pattern (14 bp):
AATCCCTAACTCAT
Found at i:1290635 original size:21 final size:21
Alignment explanation
Indices: 1290575--1290651 Score: 66
Period size: 21 Copynumber: 3.7 Consensus size: 21
1290565 CCGACCCTTA
*
1290575 AAACCCTAAATCCCTAACTCCT
1 AAACCCTAAATCCC-AACCCCT
* * **
1290597 AATCCCTAACTCATAACCCCT
1 AAACCCTAAATCCCAACCCCT
* *
1290618 AAACCTTAAATCCCAACCCTT
1 AAACCCTAAATCCCAACCCCT
*
1290639 AAACCAT-AATCCC
1 AAACCCTAAATCCC
1290652 TAAATCTATA
Statistics
Matches: 43, Mismatches: 12, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
20 6 0.14
21 27 0.63
22 10 0.23
ACGTcount: A:0.38, C:0.40, G:0.00, T:0.22
Consensus pattern (21 bp):
AAACCCTAAATCCCAACCCCT
Found at i:1291793 original size:41 final size:40
Alignment explanation
Indices: 1291717--1291908 Score: 251
Period size: 41 Copynumber: 4.7 Consensus size: 40
1291707 AATATTTTTT
* **
1291717 GCGGCGCTTTTTAAAAAACGCCGCTAAA-AATAGAGCATTA
1 GCGGCGC-TTTTCAAAAACGCCGCTAAAGACCAGAGCATTA
1291757 GCGGCGCTTTATCAAAAACGCCGCTAAAGACCAGAGCATTA
1 GCGGCGCTTT-TCAAAAACGCCGCTAAAGACCAGAGCATTA
* *
1291798 GCGGCGCTTCTTCAAAAATGCCGCTAAAGACCCGAGCATTA
1 GCGGCGCTT-TTCAAAAACGCCGCTAAAGACCAGAGCATTA
* * *
1291839 GCGGCGCTTCTCCAAAAATGCCGCTAAAGACCCGAGCATTA
1 GCGGCGCTT-TTCAAAAACGCCGCTAAAGACCAGAGCATTA
*
1291880 GCAGCGCTTTTCGAAAAACGCCGCTAAAG
1 GCGGCGCTTTTC-AAAAACGCCGCTAAAG
1291909 CCCTGAAAAA
Statistics
Matches: 139, Mismatches: 9, Indels: 7
0.90 0.06 0.05
Matches are distributed among these distances:
39 3 0.02
40 25 0.18
41 110 0.79
42 1 0.01
ACGTcount: A:0.32, C:0.27, G:0.22, T:0.19
Consensus pattern (40 bp):
GCGGCGCTTTTCAAAAACGCCGCTAAAGACCAGAGCATTA
Found at i:1292008 original size:39 final size:38
Alignment explanation
Indices: 1291946--1292080 Score: 126
Period size: 40 Copynumber: 3.4 Consensus size: 38
1291936 TGTGCTTGGG
* ** * * *
1291946 TTTTTTGCGGCGCTTTTTGAAAAATGCCACTAATGTTCA
1 TTTTTAGCGGCG-TTTTCCAAAAACGCCGCTAATGTTGA
* *
1291985 TTTTTAGCGGCGTTTTCCAAAAAACGCCGCTAATACTGGA
1 TTTTTAGCGGCGTTTTCC-AAAAACGCCGCTAAT-GTTGA
* * *
1292025 TCTTTAGCGGCGTTTTTCCTAAAGCGCCGCTAATGCTTGA
1 TTTTTAGCGGCG-TTTTCCAAAAACGCCGCTAATG-TTGA
1292065 TTTTTAGCGGCGTTTT
1 TTTTTAGCGGCGTTTT
1292081 TTGTTCAAAC
Statistics
Matches: 78, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
38 4 0.05
39 28 0.36
40 40 0.51
41 6 0.08
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (38 bp):
TTTTTAGCGGCGTTTTCCAAAAACGCCGCTAATGTTGA
Found at i:1292081 original size:40 final size:41
Alignment explanation
Indices: 1291965--1292081 Score: 141
Period size: 40 Copynumber: 2.9 Consensus size: 41
1291955 GCGCTTTTTG
* * *
1291965 AAAAATGCCACTAATG-TTCATTTTTAGCGGCG-TTTTCCA
1 AAAAACGCCGCTAATGCTTGATTTTTAGCGGCGTTTTTCCA
* * *
1292004 AAAAACGCCGCTAATACTGGATCTTTAGCGGCGTTTTTCC-
1 AAAAACGCCGCTAATGCTTGATTTTTAGCGGCGTTTTTCCA
* *
1292044 TAAAGCGCCGCTAATGCTTGATTTTTAGCGGCGTTTTT
1 AAAAACGCCGCTAATGCTTGATTTTTAGCGGCGTTTTT
1292082 TGTTCAAACG
Statistics
Matches: 65, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
39 13 0.20
40 46 0.71
41 6 0.09
ACGTcount: A:0.24, C:0.21, G:0.20, T:0.35
Consensus pattern (41 bp):
AAAAACGCCGCTAATGCTTGATTTTTAGCGGCGTTTTTCCA
Found at i:1298602 original size:18 final size:18
Alignment explanation
Indices: 1298579--1298614 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
1298569 CCCAACTACT
1298579 GTATACGTGAACAGTACC
1 GTATACGTGAACAGTACC
*
1298597 GTATACGTGAATAGTACC
1 GTATACGTGAACAGTACC
1298615 ATAAGCGGTC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.33, C:0.19, G:0.22, T:0.25
Consensus pattern (18 bp):
GTATACGTGAACAGTACC
Found at i:1301636 original size:12 final size:12
Alignment explanation
Indices: 1301619--1301652 Score: 54
Period size: 11 Copynumber: 3.0 Consensus size: 12
1301609 CCGGCTCGCC
1301619 TATATTAATTTT
1 TATATTAATTTT
1301631 TATATT-ATTTT
1 TATATTAATTTT
1301642 TATA-TAATTTT
1 TATATTAATTTT
1301653 AAAATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 1 0.05
11 14 0.67
12 6 0.29
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (12 bp):
TATATTAATTTT
Found at i:1301810 original size:30 final size:30
Alignment explanation
Indices: 1301776--1301838 Score: 99
Period size: 30 Copynumber: 2.1 Consensus size: 30
1301766 ACTTAACAAG
*
1301776 CAAATGTCACTAAAATAATAACAAAATTAA
1 CAAATATCACTAAAATAATAACAAAATTAA
**
1301806 CAAATATCTTTAAAATAATAACAAAATTAA
1 CAAATATCACTAAAATAATAACAAAATTAA
1301836 CAA
1 CAA
1301839 TAAAATAACT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.60, C:0.13, G:0.02, T:0.25
Consensus pattern (30 bp):
CAAATATCACTAAAATAATAACAAAATTAA
Found at i:1301895 original size:22 final size:22
Alignment explanation
Indices: 1301867--1301915 Score: 80
Period size: 22 Copynumber: 2.2 Consensus size: 22
1301857 ATATCTAAAC
1301867 AATAACAATAAAATAGTAGCAA
1 AATAACAATAAAATAGTAGCAA
* *
1301889 CATAACAATAAAATGGTAGCAA
1 AATAACAATAAAATAGTAGCAA
1301911 AATAA
1 AATAA
1301916 TGAGAAAAAA
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.61, C:0.10, G:0.10, T:0.18
Consensus pattern (22 bp):
AATAACAATAAAATAGTAGCAA
Found at i:1302382 original size:43 final size:45
Alignment explanation
Indices: 1302301--1302393 Score: 111
Period size: 43 Copynumber: 2.1 Consensus size: 45
1302291 ATAATAATTA
* * * *
1302301 TTGATAAAGTACTAAAAAAACATAAATAATTATGTTAATTGGAGT
1 TTGATAAAATAATAAAAAAACATAAATAATTATATTAATTAGAGT
*
1302346 TTGATAAAATAAT-AAAAAA-ATAAATAAATT-TATTAATTAGATT
1 TTGATAAAATAATAAAAAAACATAAAT-AATTATATTAATTAGAGT
1302389 TTGAT
1 TTGAT
1302394 TATATTGATA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
43 21 0.50
44 10 0.24
45 11 0.26
ACGTcount: A:0.52, C:0.02, G:0.10, T:0.37
Consensus pattern (45 bp):
TTGATAAAATAATAAAAAAACATAAATAATTATATTAATTAGAGT
Found at i:1302667 original size:8 final size:8
Alignment explanation
Indices: 1302648--1302693 Score: 60
Period size: 7 Copynumber: 5.8 Consensus size: 8
1302638 TATTTATAAT
1302648 TTTTTATA
1 TTTTTATA
1302656 -TTTTATA
1 TTTTTATA
1302663 TTTTTATA
1 TTTTTATA
1302671 -TTTTATA
1 TTTTTATA
1302678 TTTTTGAATA
1 TTTTT--ATA
1302688 TTTTTA
1 TTTTTA
1302694 AATTATTTGT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
7 14 0.41
8 12 0.35
10 8 0.24
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (8 bp):
TTTTTATA
Found at i:1302691 original size:17 final size:15
Alignment explanation
Indices: 1302648--1302682 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
1302638 TATTTATAAT
1302648 TTTTTATATTTTATA
1 TTTTTATATTTTATA
1302663 TTTTTATATTTTATA
1 TTTTTATATTTTATA
1302678 TTTTT
1 TTTTT
1302683 GAATATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTTTATATTTTATA
Found at i:1303934 original size:29 final size:27
Alignment explanation
Indices: 1303867--1303934 Score: 82
Period size: 31 Copynumber: 2.4 Consensus size: 27
1303857 AAATTTAAGG
*
1303867 TGTATAATTGCACAAAATCAAAGTTCA
1 TGTATAATTACACAAAATCAAAGTTCA
*
1303894 TGTATCAAATTACACATTATATCAAAGTTCA
1 TGTAT--AATTACACA--AAATCAAAGTTCA
1303925 TGTATAATTA
1 TGTATAATTA
1303935 TGATATTTAT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
27 5 0.14
29 13 0.37
31 17 0.49
ACGTcount: A:0.43, C:0.13, G:0.09, T:0.35
Consensus pattern (27 bp):
TGTATAATTACACAAAATCAAAGTTCA
Found at i:1305897 original size:26 final size:26
Alignment explanation
Indices: 1305866--1305916 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
1305856 TTAAAAACAG
1305866 TGATTCAAGAAAGGCAAATAAACCTA
1 TGATTCAAGAAAGGCAAATAAACCTA
1305892 TGATTCAAGAAAGGCAAATAAACCT
1 TGATTCAAGAAAGGCAAATAAACCT
1305917 TTAAGTAGGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.49, C:0.16, G:0.16, T:0.20
Consensus pattern (26 bp):
TGATTCAAGAAAGGCAAATAAACCTA
Found at i:1308472 original size:17 final size:15
Alignment explanation
Indices: 1308450--1308484 Score: 52
Period size: 17 Copynumber: 2.2 Consensus size: 15
1308440 TATTATATAT
1308450 ATTTTAAAATATTTACA
1 ATTTTAAAAT-TTTA-A
1308467 ATTTTAAAATTTTAA
1 ATTTTAAAATTTTAA
1308482 ATT
1 ATT
1308485 AATAAATTTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 4 0.22
16 4 0.22
17 10 0.56
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (15 bp):
ATTTTAAAATTTTAA
Found at i:1311257 original size:100 final size:100
Alignment explanation
Indices: 1311064--1311311 Score: 255
Period size: 100 Copynumber: 2.5 Consensus size: 100
1311054 CAGAGTAAAT
* * * * * * *
1311064 ATTAATTGACTAATTATTTTAAGTCACAACAAGACACATCAGGGTCTATATATGTGAAGAATTAT
1 ATTAATTGACTAATCATTTTATGTCACAACACGACACAACAAGATCGATATATGTGAAGAATTAT
** * * * *
1311129 GCCGTTACACATAAATTAATACACGTAGAATAAAC
66 GCCGCCACACACAAATGAATACACGTAGAACAAAA
* *
1311164 GTTAATTGACTAATCATTTTATGTCACAACACGACACAACAAGATCGATATATGTGAAGACTTAT
1 ATTAATTGACTAATCATTTTATGTCACAACACGACACAACAAGATCGATATATGTGAAGAATTAT
** * * *
1311229 GTTGCCGCGCACAAATGAATGC-CTGTAGAACAAAA
66 GCCGCCACACACAAATGAATACAC-GTAGAACAAAA
* * * * *
1311264 ATCAATTGATTAATCATTTTATGTCACGACACGACACGAGAAGATCGA
1 ATTAATTGACTAATCATTTTATGTCACAACACGACACAACAAGATCGA
1311312 GTTGGATTGT
Statistics
Matches: 121, Mismatches: 26, Indels: 2
0.81 0.17 0.01
Matches are distributed among these distances:
99 1 0.01
100 120 0.99
ACGTcount: A:0.40, C:0.17, G:0.15, T:0.28
Consensus pattern (100 bp):
ATTAATTGACTAATCATTTTATGTCACAACACGACACAACAAGATCGATATATGTGAAGAATTAT
GCCGCCACACACAAATGAATACACGTAGAACAAAA
Found at i:1311883 original size:21 final size:21
Alignment explanation
Indices: 1311865--1311925 Score: 95
Period size: 21 Copynumber: 2.9 Consensus size: 21
1311855 CCTCACCAAG
1311865 ACCACCACCAGGACCACCAGC
1 ACCACCACCAGGACCACCAGC
* *
1311886 ACCAACACCAGGGCCACCAGC
1 ACCACCACCAGGACCACCAGC
*
1311907 AGCACCACCAGGACCACCA
1 ACCACCACCAGGACCACCA
1311926 TACTCTCCTA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.34, C:0.49, G:0.16, T:0.00
Consensus pattern (21 bp):
ACCACCACCAGGACCACCAGC
Found at i:1316861 original size:18 final size:19
Alignment explanation
Indices: 1316830--1316865 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
1316820 AAAAATCAAA
*
1316830 AATAAAAATTTCAAAAAAT
1 AATAAAAATCTCAAAAAAT
1316849 AATAAAAA-CTCAAAAAA
1 AATAAAAATCTCAAAAAA
1316866 ATTAAATTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 8 0.50
19 8 0.50
ACGTcount: A:0.72, C:0.08, G:0.00, T:0.19
Consensus pattern (19 bp):
AATAAAAATCTCAAAAAAT
Found at i:1316872 original size:24 final size:26
Alignment explanation
Indices: 1316845--1316900 Score: 64
Period size: 25 Copynumber: 2.3 Consensus size: 26
1316835 AAATTTCAAA
1316845 AAATAATA-AAAACTCAAAAAA-ATT
1 AAATAATATAAAACTCAAAAAATATT
* * *
1316869 AAATTATATAAAATTTAAAAAATATT
1 AAATAATATAAAACTCAAAAAATATT
1316895 -AATAAT
1 AAATAAT
1316901 TTAATCCCAA
Statistics
Matches: 26, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
24 7 0.27
25 16 0.62
26 3 0.12
ACGTcount: A:0.66, C:0.04, G:0.00, T:0.30
Consensus pattern (26 bp):
AAATAATATAAAACTCAAAAAATATT
Found at i:1322337 original size:34 final size:34
Alignment explanation
Indices: 1322298--1322399 Score: 95
Period size: 34 Copynumber: 3.1 Consensus size: 34
1322288 CAGATTAATT
1322298 TATAATTTATGTATTATTATATTAAAATTTTAAA
1 TATAATTTATGTATTATTATATTAAAATTTTAAA
* * **
1322332 TATAATTTA-ATATT-TCAT-TTAAGCTTTTAAA
1 TATAATTTATGTATTATTATATTAAAATTTTAAA
* ** *
1322363 -ATATTTTATGTACAATTATATTAAATTATTTAAA
1 TATAATTTATGTATTATTATATTAAAAT-TTTAAA
1322397 TAT
1 TAT
1322400 CTTATAATTT
Statistics
Matches: 52, Mismatches: 11, Indels: 9
0.72 0.15 0.12
Matches are distributed among these distances:
30 7 0.13
31 13 0.25
32 6 0.12
33 9 0.17
34 15 0.29
35 2 0.04
ACGTcount: A:0.42, C:0.03, G:0.03, T:0.52
Consensus pattern (34 bp):
TATAATTTATGTATTATTATATTAAAATTTTAAA
Found at i:1326931 original size:29 final size:31
Alignment explanation
Indices: 1326879--1326943 Score: 82
Period size: 29 Copynumber: 2.2 Consensus size: 31
1326869 GTATTCTTCA
*
1326879 AATTTTAGAAATTTAGTCTCTTTA-TT-TTT
1 AATTTTAGAAATTTAATCTCTTTATTTGTTT
*
1326908 AATTTTAGAGATTTAAT-TCATTTATTTGTTT
1 AATTTTAGAAATTTAATCTC-TTTATTTGTTT
1326939 AATTT
1 AATTT
1326944 GAAAATTAAA
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
28 2 0.06
29 19 0.61
30 2 0.06
31 8 0.26
ACGTcount: A:0.29, C:0.05, G:0.08, T:0.58
Consensus pattern (31 bp):
AATTTTAGAAATTTAATCTCTTTATTTGTTT
Found at i:1329699 original size:17 final size:18
Alignment explanation
Indices: 1329669--1329714 Score: 64
Period size: 18 Copynumber: 2.8 Consensus size: 18
1329659 ATTTAAATTG
1329669 CGGTCGCGGTCGCGTTTT
1 CGGTCGCGGTCGCGTTTT
1329687 CGGTCGC-GTCGCG-TTT
1 CGGTCGCGGTCGCGTTTT
1329703 --GTCGCGGTCGCG
1 CGGTCGCGGTCGCG
1329715 GACATAACGG
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.19
15 6 0.22
16 3 0.11
17 6 0.22
18 7 0.26
ACGTcount: A:0.00, C:0.30, G:0.41, T:0.28
Consensus pattern (18 bp):
CGGTCGCGGTCGCGTTTT
Found at i:1330852 original size:228 final size:229
Alignment explanation
Indices: 1330404--1331316 Score: 1014
Period size: 228 Copynumber: 4.0 Consensus size: 229
1330394 AGGCTTAGAA
* * * * * * * *
1330404 CCCACCACG-AAGACGAAGAACAAGGTGAAGAGTGGACTCCTTTTGAATATTGTAATCAGCCAAA
1 CCCACCACGCAA-ACGAAGGACAAGGTGGAGAGTTGACTCCTTCTGGATGTTGTAATCGGCCAAG
** * * * * * * * * * * * *
1330468 GTCCTTCCGTCTTCCAGTTGTTTCCCAGCAAAAATCA-ACCTTTGCTGATCTGGTGGAATTCCTT
65 GTCCGGCCGTCCTCGAGTTGTTTTCCGGCGAAGATGAGA-CGTTGCTGGTCTGGAGGGATGCCTT
* * * * * * * * * * * * * *
1330532 CTTTGTCCTGAATCTTCGCTTTCACGTTATCAATCGTATCCGAGCTCTCCACTTCTAAAGTAATC
129 CCTTGTCTTGGATTTTGGCTTTCACGTTGTCGATCGTGTCGGAGCTCTCGACCTCGAGAGTGATC
* *
1330597 GTCTTACCGGTCAA-AGTCTTGACGAAGATCTGCAT
194 GTCTTGCCGGTCAAGAGTCTTAACGAAGATCTGCAT
* * * * * * * * * *
1330632 CCCACCTCG-AAGACGCAGGACCAGATGAAGAGTCGATTCCTTCTGGATATTGTAATCGGCTAAA
1 CCCACCACGCAA-ACGAAGGACAAGGTGGAGAGTTGACTCCTTCTGGATGTTGTAATCGGCCAAG
* * *
1330696 GTCCGCCCGTCCTCGAGTTGCTTTCCGGCGAAGATGAGACGTTGCTGGTCTGGCGGGATGCCTTC
65 GTCCGGCCGTCCTCGAGTTGTTTTCCGGCGAAGATGAGACGTTGCTGGTCTGGAGGGATGCCTTC
*
1330761 CTTGTCTTGGATTTTGGCTTTCACGTTGTCGATCGTGTCAGAGCTCTCGACCTCGAGAGTGATCG
130 CTTGTCTTGGATTTTGGCTTTCACGTTGTCGATCGTGTCGGAGCTCTCGACCTCGAGAGTGATCG
* * * *
1330826 TCTTTCCCGT-AAGCGTCTTAACGAAGATTTGCAT
195 TCTTGCCGGTCAAGAGTCTTAACGAAGATCTGCAT
* * *
1330860 CCCGCCACGCAAACGAAGGACAAGGTGGAGCGTTGACTCCTTCTGGATGTTGTAGTCGGCCAAGG
1 CCCACCACGCAAACGAAGGACAAGGTGGAGAGTTGACTCCTTCTGGATGTTGTAATCGGCCAAGG
* * *
1330925 TACGGCCGTCTTCGAGTTGTTTTCCGGCGAAGATGAGACGTTGCTGGTCTGGGGGGATGCCTTCC
66 TCCGGCCGTCCTCGAGTTGTTTTCCGGCGAAGATGAGACGTTGCTGGTCTGGAGGGATGCCTTCC
* * * * *
1330990 TTGTCTTGGATCTTCGCCTTAACGTTGTCGATCGTGTCGGAGCTCTCGACCTCGAGAGTGATTGT
131 TTGTCTTGGATTTTGGCTTTCACGTTGTCGATCGTGTCGGAGCTCTCGACCTCGAGAGTGATCGT
* * *
1331055 CTTGCCGGTCAAG-GTTTTCACGAAGATTTGCAT
196 CTTGCCGGTCAAGAGTCTTAACGAAGATCTGCAT
* * * *
1331088 CCCACCGCGCAAACGGAGGACGAGGTGGAGAGTTGACTCCTTTTGGATGTTGTAATCGGCCAAGG
1 CCCACCACGCAAACGAAGGACAAGGTGGAGAGTTGACTCCTTCTGGATGTTGTAATCGGCCAAGG
* * * *
1331153 TCCGGCCGTCCTCAAGCTGTTTTCCGGCGAAGATCAGACGCTGCTGGTCTGGAGGGATGCCTTCC
66 TCCGGCCGTCCTCGAGTTGTTTTCCGGCGAAGATGAGACGTTGCTGGTCTGGAGGGATGCCTTCC
*
1331218 TTATCTTGGATTTTGG-TCTTCACGTTGTCGATCGTGTCGGAGCTCTCGACCTCGAGAGTGATCG
131 TTGTCTTGGATTTTGGCT-TTCACGTTGTCGATCGTGTCGGAGCTCTCGACCTCGAGAGTGATCG
*
1331282 TCTTGCCGGT-TAGAGTCTTAACGAAGATCTGCAT
195 TCTTGCCGGTCAAGAGTCTTAACGAAGATCTGCAT
1331316 C
1 C
1331317 TTTTTTGGCT
Statistics
Matches: 582, Mismatches: 97, Indels: 12
0.84 0.14 0.02
Matches are distributed among these distances:
227 4 0.01
228 572 0.98
229 6 0.01
ACGTcount: A:0.20, C:0.25, G:0.26, T:0.29
Consensus pattern (229 bp):
CCCACCACGCAAACGAAGGACAAGGTGGAGAGTTGACTCCTTCTGGATGTTGTAATCGGCCAAGG
TCCGGCCGTCCTCGAGTTGTTTTCCGGCGAAGATGAGACGTTGCTGGTCTGGAGGGATGCCTTCC
TTGTCTTGGATTTTGGCTTTCACGTTGTCGATCGTGTCGGAGCTCTCGACCTCGAGAGTGATCGT
CTTGCCGGTCAAGAGTCTTAACGAAGATCTGCAT
Found at i:1332777 original size:40 final size:40
Alignment explanation
Indices: 1332722--1332803 Score: 164
Period size: 40 Copynumber: 2.0 Consensus size: 40
1332712 ATTCATCCTT
1332722 ACTTTAAAAGGTAAATTTATCTTTACCATTTCAATGTTAA
1 ACTTTAAAAGGTAAATTTATCTTTACCATTTCAATGTTAA
1332762 ACTTTAAAAGGTAAATTTATCTTTACCATTTCAATGTTAA
1 ACTTTAAAAGGTAAATTTATCTTTACCATTTCAATGTTAA
1332802 AC
1 AC
1332804 CTTTCTCATC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 42 1.00
ACGTcount: A:0.38, C:0.13, G:0.07, T:0.41
Consensus pattern (40 bp):
ACTTTAAAAGGTAAATTTATCTTTACCATTTCAATGTTAA
Found at i:1338942 original size:26 final size:26
Alignment explanation
Indices: 1338887--1338942 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 26
1338877 TAATTTATTC
**
1338887 ATTTTAAATATATAAAAAAATAATTT
1 ATTTTAAATATATAAAAAAATAATCG
1338913 ATTTTAAATA-A-AAAAAAATTAATCCG
1 ATTTTAAATATATAAAAAAA-TAAT-CG
1338939 ATTT
1 ATTT
1338943 CTAATACAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
24 7 0.27
25 5 0.19
26 14 0.54
ACGTcount: A:0.55, C:0.04, G:0.02, T:0.39
Consensus pattern (26 bp):
ATTTTAAATATATAAAAAAATAATCG
Found at i:1341262 original size:35 final size:33
Alignment explanation
Indices: 1341216--1341310 Score: 100
Period size: 35 Copynumber: 2.7 Consensus size: 33
1341206 CAATGTGTTT
1341216 TTAATGTAAACAGAACCACATCACCCTATATATGA
1 TTAATGTAAACA-AACCACA-CACCCTATATATGA
** *
1341251 TTAATGTAAACAAAACCACACTACGGTATATATGC
1 TTAATGTAAAC-AAACCACAC-ACCCTATATATGA
*
1341286 CTAATGTAAACAAAGCCACAACACC
1 TTAATGTAAACAAA-CCAC-ACACC
1341311 AGAGTCTAAT
Statistics
Matches: 51, Mismatches: 5, Indels: 8
0.80 0.08 0.12
Matches are distributed among these distances:
34 4 0.08
35 44 0.86
36 3 0.06
ACGTcount: A:0.44, C:0.24, G:0.09, T:0.22
Consensus pattern (33 bp):
TTAATGTAAACAAACCACACACCCTATATATGA
Found at i:1347029 original size:18 final size:18
Alignment explanation
Indices: 1347002--1347036 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
1346992 TATCTTTTAT
1347002 AAAAATATTAA-AATTAA
1 AAAAATATTAATAATTAA
1347019 AAAATATATTAATAATTA
1 AAAA-ATATTAATAATTA
1347037 TAACACTTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 7 0.44
19 5 0.31
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (18 bp):
AAAAATATTAATAATTAA
Found at i:1347529 original size:13 final size:16
Alignment explanation
Indices: 1347497--1347536 Score: 59
Period size: 13 Copynumber: 2.7 Consensus size: 16
1347487 TTCTCGGACC
1347497 TATTTTTATAATTAAT
1 TATTTTTATAATTAAT
1347513 TATTTTT-TAA-T-AT
1 TATTTTTATAATTAAT
1347526 TATTTTTATAA
1 TATTTTTATAA
1347537 AAAATCCTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
13 9 0.39
14 4 0.17
15 3 0.13
16 7 0.30
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (16 bp):
TATTTTTATAATTAAT
Found at i:1351387 original size:20 final size:21
Alignment explanation
Indices: 1351350--1351388 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 21
1351340 AAAATACCTT
*
1351350 AAAATATAAATTACTTTTAAA
1 AAAATATAAAGTACTTTTAAA
*
1351371 AAAATA-AAAGTATTTTTA
1 AAAATATAAAGTACTTTTA
1351389 TTTTTTTTAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 10 0.62
21 6 0.38
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.38
Consensus pattern (21 bp):
AAAATATAAAGTACTTTTAAA
Found at i:1353392 original size:31 final size:29
Alignment explanation
Indices: 1353355--1353412 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 29
1353345 ATTTGAGAAG
*
1353355 TCCTTATTTGAATACATTTGAAAATATTTAA
1 TCCTTATTT-AAT-CATTTGAAAAGATTTAA
*
1353386 TCCTTATTTAATCATTTTAAAAGATTT
1 TCCTTATTTAATCATTTGAAAAGATTT
1353413 GATCTTCACT
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
29 13 0.52
30 3 0.12
31 9 0.36
ACGTcount: A:0.36, C:0.10, G:0.05, T:0.48
Consensus pattern (29 bp):
TCCTTATTTAATCATTTGAAAAGATTTAA
Found at i:1354476 original size:30 final size:29
Alignment explanation
Indices: 1354413--1354478 Score: 91
Period size: 30 Copynumber: 2.2 Consensus size: 29
1354403 AAAAATGAAT
1354413 ATTTAGTTTTTATATTTTTATTTTTAGAA
1 ATTTAGTTTTTATATTTTTATTTTTAGAA
1354442 ATTTAGTTTATT-TATTTATTATGTTTTA-AA
1 ATTTAGTTT-TTATATTT-TTAT-TTTTAGAA
1354472 ATTTAGT
1 ATTTAGT
1354479 CTAATTATCC
Statistics
Matches: 34, Mismatches: 0, Indels: 5
0.87 0.00 0.13
Matches are distributed among these distances:
29 14 0.41
30 15 0.44
31 5 0.15
ACGTcount: A:0.29, C:0.00, G:0.08, T:0.64
Consensus pattern (29 bp):
ATTTAGTTTTTATATTTTTATTTTTAGAA
Found at i:1358071 original size:15 final size:15
Alignment explanation
Indices: 1358051--1358083 Score: 66
Period size: 15 Copynumber: 2.2 Consensus size: 15
1358041 AAAACAGACA
1358051 TGTGATAGATATACG
1 TGTGATAGATATACG
1358066 TGTGATAGATATACG
1 TGTGATAGATATACG
1358081 TGT
1 TGT
1358084 TTATAATTCG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.30, C:0.06, G:0.27, T:0.36
Consensus pattern (15 bp):
TGTGATAGATATACG
Done.