Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D04
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: 52479919
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Warning! 336953 characters in sequence are not A, C, G, or T
File 54 of 173
Found at i:15137515 original size:60 final size:60
Alignment explanation
Indices: 15137403--15137522 Score: 136
Period size: 60 Copynumber: 2.0 Consensus size: 60
15137393 TATTTTTAAA
* * * * **
15137403 TTTTTAGACTTAAGAATAAATTGATAGATTTTGTAAATGTTGAGGGACAAATTTATTGAT
1 TTTTTAGAATTAAGAATAAAATGACAAATTTTGTAAACATTGAGGGACAAATTTATTGAT
* *
15137463 TTTTTAGAATT-AGAACTAAAATGACAAATTTTGTAAACATTTAGGG-CTAAATTTGTTGAT
1 TTTTTAGAATTAAGAA-TAAAATGACAAATTTTGTAAACATTGAGGGAC-AAATTTATTGAT
15137523 GTTGGGATAA
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
59 5 0.10
60 45 0.90
ACGTcount: A:0.38, C:0.05, G:0.17, T:0.41
Consensus pattern (60 bp):
TTTTTAGAATTAAGAATAAAATGACAAATTTTGTAAACATTGAGGGACAAATTTATTGAT
Found at i:15140464 original size:3 final size:3
Alignment explanation
Indices: 15140456--15140518 Score: 58
Period size: 3 Copynumber: 20.3 Consensus size: 3
15140446 AAACTATCAT
* *
15140456 ATA ATA AT- ATGA ACA ATA AT- ATA AGTA ATA ATA ATA ATA GTA ATA
1 ATA ATA ATA AT-A ATA ATA ATA ATA A-TA ATA ATA ATA ATA ATA ATA
15140501 ATAA ATA ATAA ATA ATA A
1 AT-A ATA AT-A ATA ATA A
15140519 AAGATGATAA
Statistics
Matches: 50, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
2 4 0.08
3 36 0.72
4 10 0.20
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (3 bp):
ATA
Found at i:15140509 original size:7 final size:7
Alignment explanation
Indices: 15140470--15140519 Score: 52
Period size: 7 Copynumber: 7.3 Consensus size: 7
15140460 TAATATGAAC
15140470 AATAATA
1 AATAATA
15140477 TAAGTAAT-
1 -AA-TAATA
15140485 AATAAT-
1 AATAATA
*
15140491 AATAGT-
1 AATAATA
15140497 AATAATA
1 AATAATA
15140504 AATAATA
1 AATAATA
15140511 AATAATA
1 AATAATA
15140518 AA
1 AA
15140520 AGATGATAAT
Statistics
Matches: 38, Mismatches: 2, Indels: 5
0.84 0.04 0.11
Matches are distributed among these distances:
6 14 0.37
7 18 0.47
8 2 0.05
9 4 0.11
ACGTcount: A:0.66, C:0.00, G:0.04, T:0.30
Consensus pattern (7 bp):
AATAATA
Found at i:15142282 original size:44 final size:44
Alignment explanation
Indices: 15142229--15142435 Score: 167
Period size: 44 Copynumber: 4.8 Consensus size: 44
15142219 CCTTTATTTT
* * *
15142229 AATCCGCTCCATTGTAATCTCAGGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
* * * *
15142273 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGA--CCT-GATAC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
* * * * * *
15142314 GATCTAC-CCTACTGTAA-CTTCAGAGAGATAAGATCCT-TTA-TTTT
1 AATCTGCTCC-ACTGTAATC-TCAGGGAGATAAGAT--TACTAGCTTC
* * * * *
15142358 AACCCGCTCCACTGTAATCTGAGGGAGATAGGATTACTATCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
15142402 AATCTGCTCCACTGTAATCTCAGGGAGATAAGAT
1 AATCTGCTCCACTGTAATCTCAGGGAGATAAGAT
15142436 CTGAAATTCT
Statistics
Matches: 123, Mismatches: 29, Indels: 22
0.71 0.17 0.13
Matches are distributed among these distances:
40 3 0.02
41 27 0.22
42 3 0.02
43 2 0.02
44 85 0.69
45 3 0.02
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATCTCAGGGAGATAAGATTACTAGCTTC
Found at i:15142350 original size:129 final size:129
Alignment explanation
Indices: 15142120--15142439 Score: 489
Period size: 129 Copynumber: 2.5 Consensus size: 129
15142110 CACTGCTGCC
* * * * * * * *
15142120 CAGGGAGATA-GAGTTACTGGATTCAATGTACTCCACTGTAATCACAGGGAGGTAAAACCTAATA
1 CAGGGAGATAGGA-TTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGATA
* * *
15142184 CGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCATTGTAATCT
65 CGATCTACCCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAACCCGCTCCACTGTAATCT
*
15142249 CAGGGAGATAGGATTACTAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGACCTGATAC
1 CAGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGATAC
15142314 GATCTACCCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAACCCGCTCCACTGTAATCT
66 GATCTACCCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAACCCGCTCCACTGTAATCT
* * *
15142378 GAGGGAGATAGGATTACTATCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGATCTGA
1 CAGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGA
15142440 AATTCTTCGG
Statistics
Matches: 174, Mismatches: 16, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
129 172 0.99
130 2 0.01
ACGTcount: A:0.30, C:0.21, G:0.19, T:0.29
Consensus pattern (129 bp):
CAGGGAGATAGGATTACTAGCTTCAATCTGCTCCACTGTAATCTCAGGGAGATAAGACCTGATAC
GATCTACCCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAACCCGCTCCACTGTAATCT
Found at i:15147379 original size:80 final size:80
Alignment explanation
Indices: 15147283--15147435 Score: 306
Period size: 80 Copynumber: 1.9 Consensus size: 80
15147273 AATGGAAAAT
15147283 ATTTACTTGCATGGAAAGAAAAAAGAATGATTGCTTAAAATGAATGTAAATGTGTATTTCATTAG
1 ATTTACTTGCATGGAAAGAAAAAAGAATGATTGCTTAAAATGAATGTAAATGTGTATTTCATTAG
15147348 AATAATGAAATACAC
66 AATAATGAAATACAC
15147363 ATTTACTTGCATGGAAAGAAAAAAGAATGATTGCTTAAAATGAATGTAAATGTGTATTTCATTAG
1 ATTTACTTGCATGGAAAGAAAAAAGAATGATTGCTTAAAATGAATGTAAATGTGTATTTCATTAG
15147428 AATAATGA
66 AATAATGA
15147436 TGTTTAGGCT
Statistics
Matches: 73, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
80 73 1.00
ACGTcount: A:0.44, C:0.07, G:0.17, T:0.32
Consensus pattern (80 bp):
ATTTACTTGCATGGAAAGAAAAAAGAATGATTGCTTAAAATGAATGTAAATGTGTATTTCATTAG
AATAATGAAATACAC
Found at i:15156703 original size:52 final size:51
Alignment explanation
Indices: 15156637--15156932 Score: 226
Period size: 53 Copynumber: 5.6 Consensus size: 51
15156627 ACCACTATTT
* *
15156637 AAAAAAA-TTGGGGTGTTGGGACATTAATGGCCAACACCCCTTTATCTAGTA
1 AAAAAAATTTTGGGTGTTGGGACATTGATGGCCAACACCCCTTTATCT-GTA
* * * * * *
15156688 AAAAAAATTTTGGGTGCTAGGACATTGATGACCGACAACCCTTTTAT-TGGATTTT
1 AAAAAAATTTTGGGTGTTGGGACATTGATGGCCAAC-ACCCCTTTATCT-G---TA
* * * *
15156743 AAAAAAATTTAGGGTGTTGGGATAGTGATGGCCAACAACCCATTTATCTGATA
1 AAAAAAATTTTGGGTGTTGGGACATTGATGGCCAAC-ACCCCTTTATCTG-TA
* *
15156796 AAAATAATTTTGGAGTGTTGGGA-AGCTGATGGCCAACACCCCTTTTATCTG-A
1 AAAAAAATTTTGG-GTGTTGGGACA-TTGATGGCCAACACCCC-TTTATCTGTA
* * * * * *
15156848 TAAAAAAA-TTAGGGTGCTGGGACACTAATGGCCGACACCCCCTTTATTTG-A
1 -AAAAAAATTTTGGGTGTTGGGACATTGATGGCCAACA-CCCCTTTATCTGTA
*
15156899 TAAAAAAGTTTTGGGGTGTTGGGACATTGATGGC
1 -AAAAAAATTTT-GGGTGTTGGGACATTGATGGC
15156933 TGGCACCCCA
Statistics
Matches: 197, Mismatches: 34, Indels: 26
0.77 0.13 0.10
Matches are distributed among these distances:
51 41 0.21
52 36 0.18
53 50 0.25
54 28 0.14
55 41 0.21
56 1 0.01
ACGTcount: A:0.31, C:0.16, G:0.23, T:0.30
Consensus pattern (51 bp):
AAAAAAATTTTGGGTGTTGGGACATTGATGGCCAACACCCCTTTATCTGTA
Found at i:15156887 original size:51 final size:52
Alignment explanation
Indices: 15156636--15156932 Score: 255
Period size: 51 Copynumber: 5.6 Consensus size: 52
15156626 TACCACTATT
* * *
15156636 TAAAAAAA-TTGGGGTGTTGGGACATTAATGGCCAACACCCC-TTTATCT-A
1 TAAAAAAATTTAGGGTGTTGGGACACTGATGGCCAACACCCCTTTTATCTGA
* * * * * * *
15156685 GTAAAAAAAATTTTGGGTGCTAGGACATTGATGACCGACAACCCTTTTAT-TGGA
1 -T-AAAAAAATTTAGGGTGTTGGGACACTGATGGCCAACACCCCTTTTATCT-GA
* * * *
15156739 TTTTAAAAAAATTTAGGGTGTTGGGATAGTGATGGCCAACAACCCATTTATCTGA
1 ---TAAAAAAATTTAGGGTGTTGGGACACTGATGGCCAACACCCCTTTTATCTGA
*
15156794 TAAAAATAATTTTGGAGTGTTGGGA-AGCTGATGGCCAACACCCCTTTTATCTGA
1 TAAAAA-AATTTAGG-GTGTTGGGACA-CTGATGGCCAACACCCCTTTTATCTGA
* * * * *
15156848 TAAAAAAA-TTAGGGTGCTGGGACACTAATGGCCGACACCCCCTTTATTTGA
1 TAAAAAAATTTAGGGTGTTGGGACACTGATGGCCAACACCCCTTTTATCTGA
* * *
15156899 TAAAAAAGTTTTGGGGTGTTGGGACATTGATGGC
1 TAAAAAA-ATTTAGGGTGTTGGGACACTGATGGC
15156933 TGGCACCCCA
Statistics
Matches: 202, Mismatches: 31, Indels: 25
0.78 0.12 0.10
Matches are distributed among these distances:
50 1 0.00
51 45 0.22
52 38 0.19
53 35 0.17
54 40 0.20
55 41 0.20
56 2 0.01
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.30
Consensus pattern (52 bp):
TAAAAAAATTTAGGGTGTTGGGACACTGATGGCCAACACCCCTTTTATCTGA
Found at i:15156941 original size:53 final size:52
Alignment explanation
Indices: 15156636--15156932 Score: 237
Period size: 54 Copynumber: 5.6 Consensus size: 52
15156626 TACCACTATT
* *
15156636 TAAAAAA-ATTGGGGTGTTGGGACATTAATGGCCAACA-CCCCTTTATCTAGTA
1 TAAAAAATTTTGGGGTGTTGGGACATTGATGGCCAACACCCCCTTTATCT-G-A
* * * * * * *
15156688 AAAAAAATTTT-GGGTGCTAGGACATTGATGACCGACAACCCTTTTAT-TGGA
1 TAAAAAATTTTGGGGTGTTGGGACATTGATGGCCAACACCCCCTTTATCT-GA
* * * * * *
15156739 TTTTAAAAAAATTTAGGGTGTTGGGATAGTGATGGCCAACAACCCATTTATCTGA
1 ---TAAAAAATTTTGGGGTGTTGGGACATTGATGGCCAACACCCCCTTTATCTGA
* * *
15156794 TAAAAATAATTTTGGAGTGTTGGGA-AGCTGATGGCCAACACCCCTTTTATCTGA
1 T-AAAA-AATTTTGGGGTGTTGGGACA-TTGATGGCCAACACCCCCTTTATCTGA
* * * * * * *
15156848 TAAAAAA-ATTAGGGTGCTGGGACACTAATGGCCGACACCCCCTTTATTTGA
1 TAAAAAATTTTGGGGTGTTGGGACATTGATGGCCAACACCCCCTTTATCTGA
15156899 TAAAAAAGTTTTGGGGTGTTGGGACATTGATGGC
1 TAAAAAA-TTTTGGGGTGTTGGGACATTGATGGC
15156933 TGGCACCCCA
Statistics
Matches: 195, Mismatches: 37, Indels: 25
0.76 0.14 0.10
Matches are distributed among these distances:
51 42 0.22
52 33 0.17
53 39 0.20
54 49 0.25
55 31 0.16
56 1 0.01
ACGTcount: A:0.31, C:0.15, G:0.23, T:0.30
Consensus pattern (52 bp):
TAAAAAATTTTGGGGTGTTGGGACATTGATGGCCAACACCCCCTTTATCTGA
Found at i:15159393 original size:127 final size:127
Alignment explanation
Indices: 15159161--15159415 Score: 422
Period size: 127 Copynumber: 2.0 Consensus size: 127
15159151 ATGGCATCTA
* * *
15159161 TAATGTCCATGATTGCAACAAAAGGCAGCAACCGCTCATGTCCTTCATATTTGGCTTTGTCGCTT
1 TAATGTCCATGATTGCAACAAAAGGCAGAAACCACTCATGTCCTTCATATTTGGCTTTGTCGATT
* *
15159226 GACAAAGCTCGTGATATAGGCATACCAAAACTGCAGAGCCCCAATTGTAAGT-CCTGACATGG
66 GACAAAGCTCGTGATATAGGCATACCAAAACCGCAAAGCCCCAATTGTAAGTCCCT-ACATGG
* *
15159288 TAATGTCCATGATTGCAGCAAAAGGCAGAAACCACTCATGTCCTTCATATTTGGCTTTGTCTATT
1 TAATGTCCATGATTGCAACAAAAGGCAGAAACCACTCATGTCCTTCATATTTGGCTTTGTCGATT
*
15159353 GACAAAGCTCGTGATATAGGCATACCAAAACCGCAAAGCCCCAATTGTAATTCCCTACATGG
66 GACAAAGCTCGTGATATAGGCATACCAAAACCGCAAAGCCCCAATTGTAAGTCCCTACATGG
15159415 T
1 T
15159416 TCAGATCTTT
Statistics
Matches: 119, Mismatches: 8, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
127 116 0.97
128 3 0.03
ACGTcount: A:0.30, C:0.24, G:0.19, T:0.27
Consensus pattern (127 bp):
TAATGTCCATGATTGCAACAAAAGGCAGAAACCACTCATGTCCTTCATATTTGGCTTTGTCGATT
GACAAAGCTCGTGATATAGGCATACCAAAACCGCAAAGCCCCAATTGTAAGTCCCTACATGG
Found at i:15160555 original size:32 final size:33
Alignment explanation
Indices: 15160516--15160611 Score: 88
Period size: 36 Copynumber: 2.8 Consensus size: 33
15160506 AGAGGTTTTT
15160516 TTTCTTTCACTGTAGGGTTTTTTC-TTTCTTTC
1 TTTCTTTCACTGTAGGGTTTTTTCTTTTCTTTC
** **
15160548 TTTCTTTCAC-CAAGTTTTTTTAAATTCTTTTCTTTC
1 TTTCTTTCACTGTAG-GGTTTT---TTCTTTTCTTTC
* *
15160584 TTTCTTTCACTGTAGGGGTTTTTATTTT
1 TTTCTTTCACTGTAGGGTTTTTTCTTTT
15160612 TTAGTTTTTT
Statistics
Matches: 48, Mismatches: 10, Indels: 11
0.70 0.14 0.16
Matches are distributed among these distances:
31 2 0.04
32 14 0.29
33 6 0.12
35 3 0.06
36 21 0.44
37 2 0.04
ACGTcount: A:0.11, C:0.17, G:0.10, T:0.61
Consensus pattern (33 bp):
TTTCTTTCACTGTAGGGTTTTTTCTTTTCTTTC
Found at i:15166843 original size:41 final size:42
Alignment explanation
Indices: 15166786--15166870 Score: 145
Period size: 42 Copynumber: 2.0 Consensus size: 42
15166776 CGAAGCCTTG
* *
15166786 ATATGTGGGTGAGAAGTCATT-AAAAAAAAAAAACTATGGTC
1 ATATGTGGGCGAGAAGTCATTAAAAAAAAAAAAACTACGGTC
15166827 ATATGTGGGCGAGAAGTCATTAAAAAAAAAAAAACTACGGTC
1 ATATGTGGGCGAGAAGTCATTAAAAAAAAAAAAACTACGGTC
15166869 AT
1 AT
15166871 TTAAAATTCC
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
41 20 0.49
42 21 0.51
ACGTcount: A:0.47, C:0.09, G:0.21, T:0.22
Consensus pattern (42 bp):
ATATGTGGGCGAGAAGTCATTAAAAAAAAAAAAACTACGGTC
Found at i:15168207 original size:38 final size:38
Alignment explanation
Indices: 15168156--15168232 Score: 127
Period size: 38 Copynumber: 2.0 Consensus size: 38
15168146 TCATACTTAG
* *
15168156 TGAGAAAATCACATTTATTTTTGAATGTGACCCATTTA
1 TGAGAAAACCACATTCATTTTTGAATGTGACCCATTTA
*
15168194 TGAGAAAACCACATTCATTTTTGAATGTGGCCCATTTA
1 TGAGAAAACCACATTCATTTTTGAATGTGACCCATTTA
15168232 T
1 T
15168233 CTAACTTTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.32, C:0.16, G:0.14, T:0.38
Consensus pattern (38 bp):
TGAGAAAACCACATTCATTTTTGAATGTGACCCATTTA
Found at i:15171078 original size:19 final size:20
Alignment explanation
Indices: 15171039--15171086 Score: 71
Period size: 19 Copynumber: 2.5 Consensus size: 20
15171029 AACCATATTT
15171039 AAAACAGTCCAAAAAAATCC
1 AAAACAGTCCAAAAAAATCC
* *
15171059 AAAACAGTCC-TAAAAGTCC
1 AAAACAGTCCAAAAAAATCC
15171078 AAAACAGTC
1 AAAACAGTC
15171087 AAACAAAACG
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
19 16 0.62
20 10 0.38
ACGTcount: A:0.54, C:0.25, G:0.08, T:0.12
Consensus pattern (20 bp):
AAAACAGTCCAAAAAAATCC
Found at i:15171329 original size:23 final size:23
Alignment explanation
Indices: 15171303--15171374 Score: 99
Period size: 23 Copynumber: 3.1 Consensus size: 23
15171293 TACAGACATC
*
15171303 GATGCATAGCAGATACAGATTCA
1 GATGCATAACAGATACAGATTCA
* *
15171326 GATGCATAACAGTTATAGATTCA
1 GATGCATAACAGATACAGATTCA
* *
15171349 AATGCATAACAGATACAGATTTA
1 GATGCATAACAGATACAGATTCA
15171372 GAT
1 GAT
15171375 CCTATCCCCA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 41 1.00
ACGTcount: A:0.42, C:0.14, G:0.18, T:0.26
Consensus pattern (23 bp):
GATGCATAACAGATACAGATTCA
Found at i:15172204 original size:17 final size:17
Alignment explanation
Indices: 15172156--15172196 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
15172146 GAAAAATATG
*
15172156 TATGACTTTGAAATTGAA
1 TATGA-TTTGATATTGAA
15172174 TATGATTTGATATTGAA
1 TATGATTTGATATTGAA
*
15172191 TTTGAT
1 TATGAT
15172197 ATTGTATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.34, C:0.02, G:0.17, T:0.46
Consensus pattern (17 bp):
TATGATTTGATATTGAA
Found at i:15172686 original size:42 final size:41
Alignment explanation
Indices: 15172625--15172742 Score: 137
Period size: 42 Copynumber: 2.8 Consensus size: 41
15172615 TCGGTATATT
*
15172625 CGATGATGCATTTATGTGCTAGTATATTTTCTTCAGCTTATC
1 CGATGATGCACTTATGTGCTAGTATA-TTTCTTCAGCTTATC
* * * * *
15172667 CGATAATGCACTTACGTGCTAGTATGATTACTTCAGTTTATT
1 CGATGATGCACTTATGTGCTAGTAT-ATTTCTTCAGCTTATC
*
15172709 CGATGATGCACTATGTGTGCTAGTATAATTTCTT
1 CGATGATGCACT-TATGTGCTAGTAT-ATTTCTT
15172743 TGGTTCATCC
Statistics
Matches: 63, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
42 45 0.71
43 18 0.29
ACGTcount: A:0.24, C:0.16, G:0.18, T:0.42
Consensus pattern (41 bp):
CGATGATGCACTTATGTGCTAGTATATTTCTTCAGCTTATC
Found at i:15172812 original size:43 final size:42
Alignment explanation
Indices: 15172708--15172813 Score: 108
Period size: 43 Copynumber: 2.5 Consensus size: 42
15172698 TTCAGTTTAT
* * * *
15172708 TCGATGATGCACTATGTGTGCTAGTATAATTTCTTTGGTTCA
1 TCGATGATGCACTATGTGTGCCAATATAATTACTCTGGTTCA
*
15172750 TCCTATGATGCACCT-TGTGTGCCAATATAATTACTCTGTGTTGC-
1 T-CGATGATGCA-CTATGTGTGCCAATATAATTACTCTG-GTT-CA
*
15172794 TCGATGATGTACTATGTGTG
1 TCGATGATGCACTATGTGTG
15172814 TCAGTATCTT
Statistics
Matches: 52, Mismatches: 7, Indels: 9
0.76 0.10 0.13
Matches are distributed among these distances:
42 3 0.06
43 42 0.81
44 6 0.12
45 1 0.02
ACGTcount: A:0.21, C:0.17, G:0.22, T:0.41
Consensus pattern (42 bp):
TCGATGATGCACTATGTGTGCCAATATAATTACTCTGGTTCA
Found at i:15177060 original size:31 final size:31
Alignment explanation
Indices: 15177014--15177084 Score: 126
Period size: 31 Copynumber: 2.3 Consensus size: 31
15177004 CAATATCATC
*
15177014 ATCCATGT-TATACATAATAATCCATCCAAA
1 ATCCATTTATATACATAATAATCCATCCAAA
15177044 ATCCATTTATATACATAATAATCCATCCAAA
1 ATCCATTTATATACATAATAATCCATCCAAA
15177075 ATCCATTTAT
1 ATCCATTTAT
15177085 CTTACTTTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
30 7 0.18
31 32 0.82
ACGTcount: A:0.42, C:0.23, G:0.01, T:0.34
Consensus pattern (31 bp):
ATCCATTTATATACATAATAATCCATCCAAA
Found at i:15179445 original size:28 final size:28
Alignment explanation
Indices: 15179414--15179510 Score: 88
Period size: 28 Copynumber: 3.5 Consensus size: 28
15179404 ACATGGTGCA
*
15179414 AATAACGATAAGCACTGAAGTGTAAAAT
1 AATAACGATAAGCACTGAAGTGCAAAAT
* * * * *
15179442 AATATCGATAAACACCGAATTGCAAATTT
1 AATAACGATAAGCACTGAAGTGCAAA-AT
* * * *
15179471 TACAACGATAAGCATTCAAGTGCAAAAT
1 AATAACGATAAGCACTGAAGTGCAAAAT
15179499 AAT-ACGATAAGC
1 AATAACGATAAGC
15179511 GCGTTAATTT
Statistics
Matches: 51, Mismatches: 17, Indels: 3
0.72 0.24 0.04
Matches are distributed among these distances:
27 9 0.18
28 23 0.45
29 19 0.37
ACGTcount: A:0.47, C:0.15, G:0.14, T:0.23
Consensus pattern (28 bp):
AATAACGATAAGCACTGAAGTGCAAAAT
Found at i:15184349 original size:31 final size:30
Alignment explanation
Indices: 15184281--15184354 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 30
15184271 AAAATCCAAG
* *
15184281 ATAGTTGGGTGACACAAAAGAAATTTACTA
1 ATAGTTGGGTGACACAAAAGAAAATGACTA
* *
15184311 ATAGTTGGGTGACCCAAAAATGAAAATGAC-C
1 ATAGTTGGGTGACAC-AAAA-GAAAATGACTA
15184342 ATAGTTGGGTGAC
1 ATAGTTGGGTGAC
15184355 TACTAATATA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 14 0.37
31 17 0.45
32 7 0.18
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.24
Consensus pattern (30 bp):
ATAGTTGGGTGACACAAAAGAAAATGACTA
Found at i:15185296 original size:22 final size:22
Alignment explanation
Indices: 15185266--15185307 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
15185256 TATGTAAATA
*
15185266 TAAATTATTTAAAATAAAAACT
1 TAAAATATTTAAAATAAAAACT
**
15185288 TAAAATATTTATGATAAAAA
1 TAAAATATTTAAAATAAAAA
15185308 AAAGAGAAGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (22 bp):
TAAAATATTTAAAATAAAAACT
Found at i:15190260 original size:35 final size:35
Alignment explanation
Indices: 15190221--15190291 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
15190211 ATCTCTAGCC
15190221 AGGTCATTTTCTTAATTGTTATGGAAGGCATTGAG
1 AGGTCATTTTCTTAATTGTTATGGAAGGCATTGAG
15190256 AGGTCATTTTCTTAATTGTTATGGAAGGCATTGAG
1 AGGTCATTTTCTTAATTGTTATGGAAGGCATTGAG
15190291 A
1 A
15190292 AAACTATAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.27, C:0.08, G:0.25, T:0.39
Consensus pattern (35 bp):
AGGTCATTTTCTTAATTGTTATGGAAGGCATTGAG
Found at i:15197281 original size:15 final size:16
Alignment explanation
Indices: 15197261--15197292 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
15197251 GTCAAATTTT
15197261 ATTATTTGTTT-TTGC
1 ATTATTTGTTTGTTGC
15197276 ATTATTTGTTTGTTGC
1 ATTATTTGTTTGTTGC
15197292 A
1 A
15197293 CATTATACTC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.16, C:0.06, G:0.16, T:0.62
Consensus pattern (16 bp):
ATTATTTGTTTGTTGC
Found at i:15199690 original size:3 final size:3
Alignment explanation
Indices: 15199682--15199715 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
15199672 GGCCAAAAAT
15199682 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A
15199716 GGGTTAATAC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:15209651 original size:22 final size:22
Alignment explanation
Indices: 15209609--15209651 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
15209599 TACAATAAAA
* *
15209609 TAGACTTTTAGCGGCGTTTTTT
1 TAGACCTTTAGCGGCGCTTTTT
*
15209631 TAGACCTTTAGCGGTGCTTTT
1 TAGACCTTTAGCGGCGCTTTT
15209652 AAGCGCTACT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.14, C:0.16, G:0.23, T:0.47
Consensus pattern (22 bp):
TAGACCTTTAGCGGCGCTTTTT
Found at i:15209854 original size:44 final size:43
Alignment explanation
Indices: 15209731--15209939 Score: 240
Period size: 43 Copynumber: 4.8 Consensus size: 43
15209721 TTATGTGAAA
**
15209731 AAATGCCGCTAAAGATCATGGTCTTTAGCGGCGCTTTTATCAC
1 AAATGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTATCAC
* * * * * *
15209774 AAACGCCGCTACAGATCACGACCTTTAGCGGTGCTTTTGTCAT
1 AAATGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTATCAC
* * *
15209817 AAATGCCGCTAAAGGTCATGGCCTTTTAGCGGTGCTTTTATCAC
1 AAATGCCGCTAAAGATCATGACC-TTTAGCGGCGCTTTTATCAC
* *
15209861 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTTATCAC
1 AAATGCCGCTAAAGATCATGACCTTTAGCGGCGC-TTTTATCAC
* * * *
15209905 AAATGCCGCTATAGAACA-AACCTTTAGCGACGCTT
1 AAATGCCGCTAAAGATCATGACCTTTAGCGGCGCTT
15209940 CTCGCAAAAA
Statistics
Matches: 140, Mismatches: 24, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
42 2 0.01
43 76 0.54
44 62 0.44
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (43 bp):
AAATGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTATCAC
Found at i:15209856 original size:87 final size:87
Alignment explanation
Indices: 15209731--15209915 Score: 273
Period size: 87 Copynumber: 2.1 Consensus size: 87
15209721 TTATGTGAAA
* * *
15209731 AAATGCCGCTAAAGATCATGGTCTTTAGCGGCGCTTTTATCACAAACGCCGCTACAGATCACGAC
1 AAATGCCGCTAAAGATCATGGCCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAGAACACGAC
* * *
15209796 CTTTAGCGGTGC-TTTTGTCAT
66 CTTTAGCGGCGCTTTTTATCAC
* * *
15209817 AAATGCCGCTAAAGGTCATGGCCTTTTAGCGGTGCTTTTATCACAAACGCCGCTAAAGAACATGA
1 AAATGCCGCTAAAGATCATGGCC-TTTAGCGGCGCTTTTATCACAAACGCCGCTAAAGAACACGA
15209882 CCTTTAGCGGCGCTTTTTATCAC
65 CCTTTAGCGGCGCTTTTTATCAC
15209905 AAATGCCGCTA
1 AAATGCCGCTA
15209916 TAGAACAAAC
Statistics
Matches: 88, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
86 21 0.24
87 49 0.56
88 18 0.20
ACGTcount: A:0.26, C:0.25, G:0.21, T:0.28
Consensus pattern (87 bp):
AAATGCCGCTAAAGATCATGGCCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAGAACACGAC
CTTTAGCGGCGCTTTTTATCAC
Found at i:15209929 original size:87 final size:86
Alignment explanation
Indices: 15209731--15209939 Score: 240
Period size: 87 Copynumber: 2.4 Consensus size: 86
15209721 TTATGTGAAA
* *** * *
15209731 AAATGCCGCTAAAGATCATGGTCTTTAGCGGCGCTTTTATCACAAACGCCGCTACAGATCACGAC
1 AAATGCCGCTAAAGAACATAACCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAGAACACGAC
* * *
15209796 CTTTAGCGGTGCTTTTGTCAT
66 CTTTAGCGGCGCTTTTATCAC
** ** * *
15209817 AAATGCCGCTAAAGGTCATGGCCTTTTAGCGGTGCTTTTATCACAAACGCCGCTAAAGAACATGA
1 AAATGCCGCTAAAGAACATAACC-TTTAGCGGCGCTTTTATCACAAACGCCGCTAAAGAACACGA
15209882 CCTTTAGCGGCGCTTTTTATCAC
65 CCTTTAGCGGCGC-TTTTATCAC
* *
15209905 AAATGCCGCTATAGAACA-AACCTTTAGCGACGCTT
1 AAATGCCGCTAAAGAACATAACCTTTAGCGGCGCTT
15209940 CTCGCAAAAA
Statistics
Matches: 105, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
86 32 0.30
87 51 0.49
88 22 0.21
ACGTcount: A:0.27, C:0.25, G:0.20, T:0.28
Consensus pattern (86 bp):
AAATGCCGCTAAAGAACATAACCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAGAACACGAC
CTTTAGCGGCGCTTTTATCAC
Found at i:15210337 original size:43 final size:43
Alignment explanation
Indices: 15210275--15210365 Score: 121
Period size: 43 Copynumber: 2.1 Consensus size: 43
15210265 CACATTGCAA
* * **
15210275 GGTAATAAAAAATGCAATGCATTTTCTTAATCAATTAAATCTT
1 GGTAATAAAAAATACAATGCATTTACTTAATCAAGGAAATCTT
* *
15210318 GGTAATAAAAGATATAATGCATTTACTTAATCAAGGAAATCTT
1 GGTAATAAAAAATACAATGCATTTACTTAATCAAGGAAATCTT
15210361 -GTAAT
1 GGTAAT
15210366 GAAGTCAAAG
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
42 5 0.12
43 37 0.88
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.35
Consensus pattern (43 bp):
GGTAATAAAAAATACAATGCATTTACTTAATCAAGGAAATCTT
Found at i:15214628 original size:22 final size:22
Alignment explanation
Indices: 15214602--15214645 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
15214592 AACTCATAAC
15214602 ACATTTAGAGAATTCTGTGTTT
1 ACATTTAGAGAATTCTGTGTTT
* * *
15214624 ACATTTTGAGAGTTCTTTGTTT
1 ACATTTAGAGAATTCTGTGTTT
15214646 TCGAGTTTTT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.23, C:0.09, G:0.18, T:0.50
Consensus pattern (22 bp):
ACATTTAGAGAATTCTGTGTTT
Found at i:15218156 original size:7 final size:7
Alignment explanation
Indices: 15218144--15218276 Score: 56
Period size: 7 Copynumber: 18.7 Consensus size: 7
15218134 ACTAGTTAAT
15218144 CTAAACC
1 CTAAACC
15218151 CTAAACC
1 CTAAACC
* *
15218158 ATAAA-T
1 CTAAACC
15218164 CTAAACC
1 CTAAACC
15218171 CTAAAACC
1 CT-AAACC
*
15218179 ATAAACC
1 CTAAACC
*
15218186 ATAAACC
1 CTAAACC
* *
15218193 CTTAACA
1 CTAAACC
15218200 C-ATAACC
1 CTA-AACC
15218207 TCTAAACC
1 -CTAAACC
*
15218215 TTAAACC
1 CTAAACC
* *
15218222 C-CAGCC
1 CTAAACC
*
15218228 TTTAAACC
1 -CTAAACC
*
15218236 ATAAACC
1 CTAAACC
* *
15218243 ATAATCC
1 CTAAACC
15218250 CTAAACC
1 CTAAACC
*
15218257 CATAATCC
1 C-TAAACC
*
15218265 ATAAACC
1 CTAAACC
*
15218272 TTAAA
1 CTAAA
15218277 ATGGTAACAT
Statistics
Matches: 93, Mismatches: 25, Indels: 16
0.69 0.19 0.12
Matches are distributed among these distances:
6 7 0.08
7 66 0.71
8 19 0.20
9 1 0.01
ACGTcount: A:0.46, C:0.33, G:0.01, T:0.20
Consensus pattern (7 bp):
CTAAACC
Found at i:15218221 original size:15 final size:14
Alignment explanation
Indices: 15218145--15218276 Score: 81
Period size: 14 Copynumber: 9.3 Consensus size: 14
15218135 CTAGTTAATC
15218145 TAAACCCTAAACCA
1 TAAACCCTAAACCA
* *
15218159 TAAA-TCTAAACCC
1 TAAACCCTAAACCA
*
15218172 TAAAACCATAAACCA
1 T-AAACCCTAAACCA
*
15218187 TAAACCCTTAACACA
1 TAAACCCTAAAC-CA
*
15218202 T-AACCTCTAAACCT
1 TAAACC-CTAAACCA
* * *
15218216 TAAACCC-CAGCCTT
1 TAAACCCTAAACC-A
*
15218230 TAAACCATAAACCA
1 TAAACCCTAAACCA
*
15218244 TAATCCCTAAACCCA
1 TAAACCCTAAA-CCA
* * *
15218259 TAATCCATAAACCT
1 TAAACCCTAAACCA
15218273 TAAA
1 TAAA
15218277 ATGGTAACAT
Statistics
Matches: 90, Mismatches: 20, Indels: 16
0.71 0.16 0.13
Matches are distributed among these distances:
13 11 0.12
14 44 0.49
15 35 0.39
ACGTcount: A:0.46, C:0.33, G:0.01, T:0.20
Consensus pattern (14 bp):
TAAACCCTAAACCA
Found at i:15218276 original size:22 final size:21
Alignment explanation
Indices: 15218145--15218276 Score: 81
Period size: 22 Copynumber: 6.2 Consensus size: 21
15218135 CTAGTTAATC
* *
15218145 TAAACCCTAAACCATAAATC-
1 TAAACCATAAACCATAAACCT
* *
15218165 TAAACCCTAAAACCATAAACCA
1 TAAACCAT-AAACCATAAACCT
* *
15218187 TAAACCCTTAACACAT-AACCT
1 TAAACCATAAAC-CATAAACCT
* ** *
15218208 CTAAACCTTAAACC-CCAGCCTT
1 -TAAACCATAAACCATAAACC-T
* *
15218230 TAAACCATAAACCATAATCCC
1 TAAACCATAAACCATAAACCT
*
15218251 TAAACCCATAATCCATAAACCT
1 TAAA-CCATAAACCATAAACCT
15218273 TAAA
1 TAAA
15218277 ATGGTAACAT
Statistics
Matches: 89, Mismatches: 15, Indels: 14
0.75 0.13 0.12
Matches are distributed among these distances:
20 8 0.09
21 38 0.43
22 43 0.48
ACGTcount: A:0.46, C:0.33, G:0.01, T:0.20
Consensus pattern (21 bp):
TAAACCATAAACCATAAACCT
Found at i:15218340 original size:75 final size:75
Alignment explanation
Indices: 15218237--15218405 Score: 284
Period size: 75 Copynumber: 2.3 Consensus size: 75
15218227 CTTTAAACCA
* * **
15218237 TAAACCATAATCCCTAAACCCATAATCCATAAACCTTAAAATGGTAACATTTAAACCTATCTAAA
1 TAAACCAAAAACCCTAAACCCATAATCCATAAACCTTAAAATGGTAACACATAAACCTATCTAAA
15218302 ACATATACCC
66 ACATATACCC
*
15218312 TAAACCAAAAACCTTAAACCCATAATCCATAAACCTTAAAATGGTAACACATAAACCTATCTAAA
1 TAAACCAAAAACCCTAAACCCATAATCCATAAACCTTAAAATGGTAACACATAAACCTATCTAAA
*
15218377 CCATATACCC
66 ACATATACCC
15218387 TAAACCAAAAACCCTAAAC
1 TAAACCAAAAACCCTAAAC
15218406 TATAGTGATA
Statistics
Matches: 87, Mismatches: 7, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
75 87 1.00
ACGTcount: A:0.48, C:0.28, G:0.02, T:0.22
Consensus pattern (75 bp):
TAAACCAAAAACCCTAAACCCATAATCCATAAACCTTAAAATGGTAACACATAAACCTATCTAAA
ACATATACCC
Found at i:15218391 original size:14 final size:14
Alignment explanation
Indices: 15218372--15218405 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
15218362 ATAAACCTAT
* *
15218372 CTAAACCATATACC
1 CTAAACCAAAAACC
15218386 CTAAACCAAAAACC
1 CTAAACCAAAAACC
15218400 CTAAAC
1 CTAAAC
15218406 TATAGTGATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.50, C:0.35, G:0.00, T:0.15
Consensus pattern (14 bp):
CTAAACCAAAAACC
Found at i:15218637 original size:41 final size:41
Alignment explanation
Indices: 15218575--15218704 Score: 197
Period size: 41 Copynumber: 3.2 Consensus size: 41
15218565 TAAATTACTT
* * *
15218575 TAAATCCCTGATCATTAGCGGCGTTTTCTCAAAAACACAGC
1 TAAATCCCTGAGCATTAGCGGCGCTTTCTCAAAAACACCGC
*
15218616 TAAAGCCCTGAGCATTAGCGGCGCTTTCTCAAAAACACCGC
1 TAAATCCCTGAGCATTAGCGGCGCTTTCTCAAAAACACCGC
* * *
15218657 TAAATCCCTGAGCATTAGTGGCGCTTTCTTAAAAACGCCGC
1 TAAATCCCTGAGCATTAGCGGCGCTTTCTCAAAAACACCGC
15218698 TAAATCC
1 TAAATCC
15218705 TCGAAAGCTC
Statistics
Matches: 81, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 81 1.00
ACGTcount: A:0.30, C:0.28, G:0.17, T:0.25
Consensus pattern (41 bp):
TAAATCCCTGAGCATTAGCGGCGCTTTCTCAAAAACACCGC
Found at i:15234494 original size:27 final size:27
Alignment explanation
Indices: 15234464--15234517 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
15234454 TACAGCTGAA
*
15234464 GCATAGGGAACCTTTCTCATGTTCTAT
1 GCATAAGGAACCTTTCTCATGTTCTAT
15234491 GCATAAGGAACCTTTCTCATGTTCTAT
1 GCATAAGGAACCTTTCTCATGTTCTAT
15234518 CTTTCTTCCA
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:0.24, C:0.22, G:0.17, T:0.37
Consensus pattern (27 bp):
GCATAAGGAACCTTTCTCATGTTCTAT
Found at i:15241560 original size:20 final size:20
Alignment explanation
Indices: 15241543--15241581 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
15241533 TATCGATACT
*
15241543 TTTATTAAGGTATTGATATA
1 TTTACTAAGGTATTGATATA
*
15241563 TTTCCTAAGGTATTGATAT
1 TTTACTAAGGTATTGATAT
15241582 TCCTACTCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.05, G:0.15, T:0.49
Consensus pattern (20 bp):
TTTACTAAGGTATTGATATA
Found at i:15241586 original size:17 final size:19
Alignment explanation
Indices: 15241548--15241586 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
15241538 ATACTTTTAT
15241548 TAAGGTATTGATATATTTCC
1 TAAGGTATTGA-ATATTTCC
15241568 TAAGGTATTG-ATA-TTCC
1 TAAGGTATTGAATATTTCC
15241585 TA
1 TA
15241587 CTCCAATGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 3 0.16
20 10 0.53
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.44
Consensus pattern (19 bp):
TAAGGTATTGAATATTTCC
Found at i:15244371 original size:17 final size:17
Alignment explanation
Indices: 15244341--15244410 Score: 56
Period size: 17 Copynumber: 4.1 Consensus size: 17
15244331 GATTTATGAT
15244341 TTGAATATGA-AATGAAA
1 TTGAA-ATGAGAATGAAA
15244358 TTGAAATGAGAATGAGAA
1 TTGAAATGAGAATGA-AA
* *
15244376 -TGATATGAAAATGGAAA
1 TTGAAATGAGAAT-GAAA
*
15244393 TGGAAATG-GAAATGAAA
1 TTGAAATGAG-AATGAAA
15244410 T
1 T
15244411 GGATGTTATA
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
16 4 0.09
17 27 0.63
18 12 0.28
ACGTcount: A:0.51, C:0.00, G:0.24, T:0.24
Consensus pattern (17 bp):
TTGAAATGAGAATGAAA
Found at i:15244393 original size:6 final size:6
Alignment explanation
Indices: 15244384--15244413 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
15244374 AATGATATGA
15244384 AAATGG AAATGG AAATGG AAAT-G AAATGG A
1 AAATGG AAATGG AAATGG AAATGG AAATGG A
15244414 TGTTATAGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.53, C:0.00, G:0.30, T:0.17
Consensus pattern (6 bp):
AAATGG
Found at i:15244401 original size:12 final size:11
Alignment explanation
Indices: 15244347--15244413 Score: 59
Period size: 11 Copynumber: 5.9 Consensus size: 11
15244337 TGATTTGAAT
15244347 ATGAAAT-GAA
1 ATGAAATGGAA
15244357 ATTGAAAT-GAGA
1 A-TGAAATGGA-A
*
15244369 ATGAGAAT-GAT
1 ATGA-AATGGAA
15244380 ATGAAAATGGAA
1 ATG-AAATGGAA
15244392 ATGGAAATGGAA
1 AT-GAAATGGAA
15244404 ATGAAATGGA
1 ATGAAATGGA
15244414 TGTTATAGTC
Statistics
Matches: 49, Mismatches: 2, Indels: 11
0.79 0.03 0.18
Matches are distributed among these distances:
10 1 0.02
11 25 0.51
12 22 0.45
13 1 0.02
ACGTcount: A:0.52, C:0.00, G:0.27, T:0.21
Consensus pattern (11 bp):
ATGAAATGGAA
Found at i:15244411 original size:17 final size:17
Alignment explanation
Indices: 15244349--15244413 Score: 62
Period size: 17 Copynumber: 3.8 Consensus size: 17
15244339 ATTTGAATAT
*
15244349 GAAATGAAATTGAAAT-
1 GAAATGAAATGGAAATG
*
15244365 GAGAATGAGAAT-GATATG
1 GA-AATGA-AATGGAAATG
*
15244383 AAAATGGAAATGGAAATG
1 GAAAT-GAAATGGAAATG
15244401 GAAATGAAATGGA
1 GAAATGAAATGGA
15244414 TGTTATAGTC
Statistics
Matches: 40, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
16 2 0.05
17 23 0.57
18 15 0.38
ACGTcount: A:0.52, C:0.00, G:0.28, T:0.20
Consensus pattern (17 bp):
GAAATGAAATGGAAATG
Found at i:15251999 original size:131 final size:131
Alignment explanation
Indices: 15251751--15252308 Score: 632
Period size: 131 Copynumber: 4.3 Consensus size: 131
15251741 TTACTTTATC
* * *
15251751 TATCATGAATAATCTTATTTGAGTTAGCTAATTTAATATCGCTACTCCAAACAACTCACTGATTT
1 TATCATGAACAATCTTATTTGAGTTAGCTGATTTAATATCGCTACTCCAAACAACTCATTGATTT
* * * * * * * * ** * ** *
15251816 AATATTACAGTTGATATCGTTAAGGTTCGCTAATTTAATATTTCTATTTAAGTTCATTCA-ATTT
66 AAGATCACAGCTAATATCATTAAGGTTCACTGATTTAAGATCACAACCTAAGTTTATT-AGATTT
15251880 AA
130 AA
* * * * *
15251882 TATCATGAACAATCTTATTTTAGTTAGTTGATTTAATATCGCTACTTCAAACAGCTCGTTGATTT
1 TATCATGAACAATCTTATTTGAGTTAGCTGATTTAATATCGCTACTCCAAACAACTCATTGATTT
** * * * *
15251947 AAGATTGCAGCTAATGTCATTAAGGTTCATTGATTTAAGATCACAACCTAAGTTAATTTGATTTA
66 AAGATCACAGCTAATATCATTAAGGTTCACTGATTTAAGATCACAACCTAAGTTTATTAGATTTA
15252012 A
131 A
* * * * * *
15252013 AATCATGAACAATATTATTTAAGTTAGCTAATTTAATATTGCTACTCCAAACAACTCGTTGATTT
1 TATCATGAACAATCTTATTTGAGTTAGCTGATTTAATATCGCTACTCCAAACAACTCATTGATTT
* ** *
15252078 AAGATCACAGCTAATATCGTTAAGGTTCACTGATTTAAGATTGCAACCGAAGTTTATTAGATTTA
66 AAGATCACAGCTAATATCATTAAGGTTCACTGATTTAAGATCACAACCTAAGTTTATTAGATTTA
15252143 A
131 A
* * * * * *
15252144 TATCATCAACAATCATATCTGAGTTAGCTGATTTACTATCGCTACTCCAAACAGCTTATTGATTT
1 TATCATGAACAATCTTATTTGAGTTAGCTGATTTAATATCGCTACTCCAAACAACTCATTGATTT
* * * * * *
15252209 AAGATCGCAGTTGACATCATTAAAGTTCATTGATTTAAGATCACAACCTAAGTTTATTAGATTTA
66 AAGATCACAGCTAATATCATTAAGGTTCACTGATTTAAGATCACAACCTAAGTTTATTAGATTTA
15252274 A
131 A
* *
15252275 TATCATGAACAATCTCATTTGTGTTAGCTGATTT
1 TATCATGAACAATCTTATTTGAGTTAGCTGATTT
15252309 TCCAAACACT
Statistics
Matches: 356, Mismatches: 70, Indels: 2
0.83 0.16 0.00
Matches are distributed among these distances:
131 356 1.00
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.39
Consensus pattern (131 bp):
TATCATGAACAATCTTATTTGAGTTAGCTGATTTAATATCGCTACTCCAAACAACTCATTGATTT
AAGATCACAGCTAATATCATTAAGGTTCACTGATTTAAGATCACAACCTAAGTTTATTAGATTTA
A
Found at i:15252303 original size:262 final size:262
Alignment explanation
Indices: 15251751--15252308 Score: 740
Period size: 262 Copynumber: 2.1 Consensus size: 262
15251741 TTACTTTATC
*
15251751 TATCATGAATAATCTTATTTGAGTTAGCTAATTTAATATCGCTACTCCAAACAACTCACTGATTT
1 TATCATGAACAATCTTATTTGAGTTAGCTAATTTAATATCGCTACTCCAAACAACTCACTGATTT
* * * * * * * * ***
15251816 AATATTACAGTTGATATCGTTAAGGTTCGCTAATTTAATATTTCTATTTAAGTTCATTCAATTTA
66 AAGATCACAGCTAATATCGTTAAGGTTCACTAATTTAAGATTGCAACCGAAGTTCATTCAATTTA
* * * * * * *
15251881 ATATCATGAACAATCTTATTTTAGTTAGTTGATTTAATATCGCTACTTCAAACAGCTCGTTGATT
131 ATATCATCAACAATCATATCTGAGTTAGCTGATTTAATATCGCTACTCCAAACAGCTCATTGATT
* ** * *
15251946 TAAGATTGCAGCTAATGTCATTAAGGTTCATTGATTTAAGATCACAACCTAAGTTAATTTGATTT
196 TAAGATCGCAGCTAACATCATTAAAGTTCATTGATTTAAGATCACAACCTAAGTTAATTAGATTT
15252011 AA
261 AA
* * * * **
15252013 AATCATGAACAATATTATTTAAGTTAGCTAATTTAATATTGCTACTCCAAACAACTCGTTGATTT
1 TATCATGAACAATCTTATTTGAGTTAGCTAATTTAATATCGCTACTCCAAACAACTCACTGATTT
* *
15252078 AAGATCACAGCTAATATCGTTAAGGTTCACTGATTTAAGATTGCAACCGAAGTTTATT-AGATTT
66 AAGATCACAGCTAATATCGTTAAGGTTCACTAATTTAAGATTGCAACCGAAGTTCATTCA-ATTT
* *
15252142 AATATCATCAACAATCATATCTGAGTTAGCTGATTTACTATCGCTACTCCAAACAGCTTATTGAT
130 AATATCATCAACAATCATATCTGAGTTAGCTGATTTAATATCGCTACTCCAAACAGCTCATTGAT
* * *
15252207 TTAAGATCGCAGTTGACATCATTAAAGTTCATTGATTTAAGATCACAACCTAAGTTTATTAGATT
195 TTAAGATCGCAGCTAACATCATTAAAGTTCATTGATTTAAGATCACAACCTAAGTTAATTAGATT
15252272 TAA
260 TAA
* * *
15252275 TATCATGAACAATCTCATTTGTGTTAGCTGATTT
1 TATCATGAACAATCTTATTTGAGTTAGCTAATTT
15252309 TCCAAACACT
Statistics
Matches: 252, Mismatches: 43, Indels: 2
0.85 0.14 0.01
Matches are distributed among these distances:
261 1 0.00
262 251 1.00
ACGTcount: A:0.34, C:0.15, G:0.12, T:0.39
Consensus pattern (262 bp):
TATCATGAACAATCTTATTTGAGTTAGCTAATTTAATATCGCTACTCCAAACAACTCACTGATTT
AAGATCACAGCTAATATCGTTAAGGTTCACTAATTTAAGATTGCAACCGAAGTTCATTCAATTTA
ATATCATCAACAATCATATCTGAGTTAGCTGATTTAATATCGCTACTCCAAACAGCTCATTGATT
TAAGATCGCAGCTAACATCATTAAAGTTCATTGATTTAAGATCACAACCTAAGTTAATTAGATTT
AA
Found at i:15253493 original size:22 final size:20
Alignment explanation
Indices: 15253445--15253483 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
15253435 TTTAAATTAA
*
15253445 TTAAAATCATTTTGACTTGG
1 TTAAAATCATTTTCACTTGG
15253465 TTAAAATCATTTTCACTTG
1 TTAAAATCATTTTCACTTG
15253484 ATTTTAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.31, C:0.13, G:0.10, T:0.46
Consensus pattern (20 bp):
TTAAAATCATTTTCACTTGG
Found at i:15253624 original size:13 final size:13
Alignment explanation
Indices: 15253606--15253630 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
15253596 CACTTCAGTT
15253606 TATTTTATCAAAA
1 TATTTTATCAAAA
15253619 TATTTTATCAAA
1 TATTTTATCAAA
15253631 TAAAGCTTGG
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:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (13 bp):
TATTTTATCAAAA
Found at i:15253744 original size:39 final size:39
Alignment explanation
Indices: 15253688--15253762 Score: 132
Period size: 39 Copynumber: 1.9 Consensus size: 39
15253678 ATTATGAATT
* *
15253688 AGCGTTGGTATCTTGGGGGCCAACGAGCTCTTCATCCTC
1 AGCGTTAGTATCCTGGGGGCCAACGAGCTCTTCATCCTC
15253727 AGCGTTAGTATCCTGGGGGCCAACGAGCTCTTCATC
1 AGCGTTAGTATCCTGGGGGCCAACGAGCTCTTCATC
15253763 TTTTCATTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.17, C:0.28, G:0.28, T:0.27
Consensus pattern (39 bp):
AGCGTTAGTATCCTGGGGGCCAACGAGCTCTTCATCCTC
Found at i:15260326 original size:72 final size:72
Alignment explanation
Indices: 15260187--15260328 Score: 166
Period size: 72 Copynumber: 2.0 Consensus size: 72
15260177 ATAATAAAAG
* * * * *
15260187 TATTTAAATAAAATATATTTTAAATTAAATTAAATAATTTCTAATAAAAGTATATTAACCACCGT
1 TATTTAAATAAAATATATTCTAAATTAAATTAAATAATTTCTAACAAAAGTATATGAACAACAGT
15260252 AAAAATA
66 AAAAATA
*
15260259 TATTTAAATAAAATA-ATTGCT-AATTAAATTAAATAATTTTGCTAACAAAA-T-TGATGAAGAA
1 TATTTAAATAAAATATATT-CTAAATTAAATTAAATAA-TTT-CTAACAAAAGTAT-ATGAACAA
15260320 CAGTAAAAA
62 CAGTAAAAA
15260329 AAAAAAAAGG
Statistics
Matches: 60, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
71 19 0.32
72 33 0.55
73 8 0.13
ACGTcount: A:0.53, C:0.06, G:0.06, T:0.35
Consensus pattern (72 bp):
TATTTAAATAAAATATATTCTAAATTAAATTAAATAATTTCTAACAAAAGTATATGAACAACAGT
AAAAATA
Found at i:15268055 original size:2 final size:2
Alignment explanation
Indices: 15268048--15268075 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
15268038 TTTCATTTAA
15268048 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT
15268076 ATATATATAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:15273945 original size:2 final size:2
Alignment explanation
Indices: 15273940--15273964 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
15273930 TAATCATATA
15273940 TG TG TG TG TG TG TG TG TG TG TG TG T
1 TG TG TG TG TG TG TG TG TG TG TG TG T
15273965 CAGATTACCC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.00, G:0.48, T:0.52
Consensus pattern (2 bp):
TG
Found at i:15278848 original size:9 final size:9
Alignment explanation
Indices: 15278834--15278877 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
15278824 AATAAGTATT
15278834 AATTAATTA
1 AATTAATTA
15278843 AATTAATTA
1 AATTAATTA
*
15278852 AATTAATCAA
1 AATTAAT-TA
*
15278862 AATT-ACTA
1 AATTAATTA
15278870 AATTAATT
1 AATTAATT
15278878 TCCCACTTAA
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
8 5 0.17
9 19 0.66
10 5 0.17
ACGTcount: A:0.55, C:0.05, G:0.00, T:0.41
Consensus pattern (9 bp):
AATTAATTA
Found at i:15282562 original size:25 final size:25
Alignment explanation
Indices: 15282534--15282622 Score: 83
Period size: 25 Copynumber: 3.6 Consensus size: 25
15282524 CTTATGAGTG
15282534 TCCCGATATATGGCTCTTCGGAGCT
1 TCCCGATATATGGCTCTTCGGAGCT
** **
15282559 TCCCGATAGCTGGCTCTTATGAGCT
1 TCCCGATATATGGCTCTTCGGAGCT
** *
15282584 TCTTGAT-TAATGGCTCTCCGGAGCT
1 TCCCGATAT-ATGGCTCTTCGGAGCT
*
15282609 TCCCAATAT-TGGCT
1 TCCCGATATATGGCT
15282623 TGCTTGAACT
Statistics
Matches: 48, Mismatches: 14, Indels: 5
0.72 0.21 0.07
Matches are distributed among these distances:
24 5 0.10
25 42 0.88
26 1 0.02
ACGTcount: A:0.17, C:0.27, G:0.22, T:0.34
Consensus pattern (25 bp):
TCCCGATATATGGCTCTTCGGAGCT
Found at i:15282678 original size:25 final size:24
Alignment explanation
Indices: 15282650--15282740 Score: 83
Period size: 25 Copynumber: 3.7 Consensus size: 24
15282640 TGCGGCTCTT
*
15282650 ATGAGCTTCCCGTTATACAGCTCGA
1 ATGAGCTTCCCATTATACAGCTC-A
** *
15282675 ATGAGCTTTTCATTATACAACTCAA
1 ATGAGCTTCCCATTATACAGCTC-A
* * **
15282700 ATGAGCTTCCCGTTACATGGCTCA
1 ATGAGCTTCCCATTATACAGCTCA
15282724 CATGAGCTTCCCATTAT
1 -ATGAGCTTCCCATTAT
15282741 TTAGCTTGAA
Statistics
Matches: 51, Mismatches: 14, Indels: 2
0.76 0.21 0.03
Matches are distributed among these distances:
24 1 0.02
25 50 0.98
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.32
Consensus pattern (24 bp):
ATGAGCTTCCCATTATACAGCTCA
Found at i:15286602 original size:42 final size:42
Alignment explanation
Indices: 15286551--15286635 Score: 143
Period size: 42 Copynumber: 2.0 Consensus size: 42
15286541 TGAGTAAGGC
* **
15286551 TCCGTAGATGTAGAATTAGTGAATCTGAATTATGTTAAAAAA
1 TCCGTAGATGTAGAATTAGTGAATCCGAATTACATTAAAAAA
15286593 TCCGTAGATGTAGAATTAGTGAATCCGAATTACATTAAAAAA
1 TCCGTAGATGTAGAATTAGTGAATCCGAATTACATTAAAAAA
15286635 T
1 T
15286636 ATCATCTATT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.41, C:0.09, G:0.18, T:0.32
Consensus pattern (42 bp):
TCCGTAGATGTAGAATTAGTGAATCCGAATTACATTAAAAAA
Found at i:15286964 original size:17 final size:17
Alignment explanation
Indices: 15286938--15286974 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
15286928 CATTAACTAA
15286938 TTTTTTTATATAT-ATT
1 TTTTTTTATATATAATT
15286954 TTTTGTTTATATATAATT
1 TTTT-TTTATATATAATT
15286972 TTT
1 TTT
15286975 ATGTCAAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 4 0.21
17 9 0.47
18 6 0.32
ACGTcount: A:0.24, C:0.00, G:0.03, T:0.73
Consensus pattern (17 bp):
TTTTTTTATATATAATT
Found at i:15287082 original size:32 final size:32
Alignment explanation
Indices: 15287045--15287130 Score: 111
Period size: 31 Copynumber: 2.7 Consensus size: 32
15287035 ATAAAATCAT
* *
15287045 TATTTCTAATAACATTATTTTTATATAAAAAA
1 TATTTCAAATATCATTATTTTTATATAAAAAA
***
15287077 TATTTCAAATATCATTA-TTTTATATGTGAAA
1 TATTTCAAATATCATTATTTTTATATAAAAAA
15287108 TATTTCAAATATCATTATATTTT
1 TATTTCAAATATCATTAT-TTTT
15287131 TACCTATATT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
31 28 0.60
32 15 0.32
33 4 0.09
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.50
Consensus pattern (32 bp):
TATTTCAAATATCATTATTTTTATATAAAAAA
Found at i:15287129 original size:17 final size:17
Alignment explanation
Indices: 15287076--15287129 Score: 51
Period size: 15 Copynumber: 3.4 Consensus size: 17
15287066 TATATAAAAA
15287076 ATATTTCAAATATCATT
1 ATATTTCAAATATCATT
* * * *
15287093 AT-TTT-ATATGTGA-A
1 ATATTTCAAATATCATT
15287107 ATATTTCAAATATCATT
1 ATATTTCAAATATCATT
15287124 ATATTT
1 ATATTT
15287130 TTACCTATAT
Statistics
Matches: 26, Mismatches: 8, Indels: 6
0.65 0.20 0.15
Matches are distributed among these distances:
14 2 0.08
15 8 0.31
16 8 0.31
17 8 0.31
ACGTcount: A:0.39, C:0.07, G:0.04, T:0.50
Consensus pattern (17 bp):
ATATTTCAAATATCATT
Found at i:15293849 original size:45 final size:44
Alignment explanation
Indices: 15293799--15293891 Score: 118
Period size: 44 Copynumber: 2.1 Consensus size: 44
15293789 GGTTCGCTGT
*
15293799 AATGGAATAGAGGC-GTAATAGTAATTCAAT-TGTTTGGTTGAATGA
1 AATGGAATAGA-ACTGTAATAGT-ATT-AATGTGTTTGGTTGAATGA
* *
15293844 AATGGAATAGAACTGTAATAGTATTATTGTGTTTGGTTGAATGG
1 AATGGAATAGAACTGTAATAGTATTAATGTGTTTGGTTGAATGA
15293888 AATG
1 AATG
15293892 ATGTTGTAAT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
43 2 0.05
44 22 0.51
45 19 0.44
ACGTcount: A:0.34, C:0.03, G:0.27, T:0.35
Consensus pattern (44 bp):
AATGGAATAGAACTGTAATAGTATTAATGTGTTTGGTTGAATGA
Found at i:15300658 original size:92 final size:91
Alignment explanation
Indices: 15300501--15300709 Score: 276
Period size: 92 Copynumber: 2.3 Consensus size: 91
15300491 TTGATTTTAG
* * *
15300501 TAAATTCATATAAGAACATTTTATTATTAACAATTTTATGAAATTATATATCACTATTAAATTAT
1 TAAATTCATATAAGAA-AATTTATTATCAACAATTTTATGAAATTATATATAACTATTAAATTAT
* * *
15300566 ATTTAATATTAATTATTTTAAATTGTA
65 ATGTAATAATAATTATTTTAAATTATA
* *
15300593 TAAATTCATATAAGAAAATTTATTATCAAGAATTTTATGAAATT-TAATATTAATTATTAAATTA
1 TAAATTCATATAAGAAAATTTATTATCAACAATTTTATGAAATTAT-ATA-TAACTATTAAATTA
15300657 TATGTAATAATAATTATTTTAAATTATA
64 TATGTAATAATAATTATTTTAAATTATA
* * * *
15300685 CAAATTCATAAAATATAATTTATTA
1 TAAATTCATATAAGAAAATTTATTA
15300710 GTTATAATTA
Statistics
Matches: 103, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
90 1 0.01
91 28 0.27
92 74 0.72
ACGTcount: A:0.46, C:0.04, G:0.03, T:0.46
Consensus pattern (91 bp):
TAAATTCATATAAGAAAATTTATTATCAACAATTTTATGAAATTATATATAACTATTAAATTATA
TGTAATAATAATTATTTTAAATTATA
Found at i:15300670 original size:24 final size:25
Alignment explanation
Indices: 15300637--15300684 Score: 71
Period size: 24 Copynumber: 1.9 Consensus size: 25
15300627 TTATGAAATT
*
15300637 TAATATTAATTA-TTAAATTATATG
1 TAATAATAATTATTTAAATTATATG
15300661 TAATAATAATTATTTTAAATTATA
1 TAATAATAATTA-TTTAAATTATA
15300685 CAAATTCATA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 11 0.52
26 10 0.48
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (25 bp):
TAATAATAATTATTTAAATTATATG
Found at i:15300839 original size:66 final size:62
Alignment explanation
Indices: 15300763--15300973 Score: 181
Period size: 66 Copynumber: 3.4 Consensus size: 62
15300753 AAATATATTT
15300763 AATATTAATTATTTCAAATTTTCATTTATAGTATCATATATTATGATTTGAGTAAATTAATATAA
1 AATATTAATTATTT-AAATTTT-ATTTA-AGTATCATATATTATGATTTGAGTAAATT-ATATAA
15300828 G
62 G
* * * * **
15300829 AATATTAATTATTAAGAATTTTA-TTAA--ATTATATATT-TTAATT-A-T-AA-TATAT-TT
1 AATATTAATTATTTA-AATTTTATTTAAGTATCATATATTATGATTTGAGTAAATTATATAAG
*
15300883 AATAATAATTATGTT-AATTTATATTTTACAGTATCATATATTATGATTTGAGTAAATTCATATA
1 AATATTAATTAT-TTAAATTT-TA-TTTA-AGTATCATATATTATGATTTGAGTAAATT-ATATA
15300947 AG
61 AG
*
15300949 AATATTAATTATTAAGAATTTTATT
1 AATATTAATTATTTA-AATTTTATT
15300974 AAATTATATA
Statistics
Matches: 113, Mismatches: 15, Indels: 35
0.69 0.09 0.21
Matches are distributed among these distances:
53 5 0.04
54 13 0.12
55 5 0.04
56 4 0.04
57 3 0.03
58 1 0.01
59 10 0.09
60 8 0.07
61 10 0.09
62 1 0.01
63 3 0.03
64 4 0.04
65 9 0.08
66 32 0.28
67 5 0.04
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.49
Consensus pattern (62 bp):
AATATTAATTATTTAAATTTTATTTAAGTATCATATATTATGATTTGAGTAAATTATATAAG
Found at i:15300863 original size:120 final size:120
Alignment explanation
Indices: 15300725--15301017 Score: 493
Period size: 120 Copynumber: 2.4 Consensus size: 120
15300715 AATTATTTTA
* * *
15300725 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTT-TCA-
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT--AATTTAT-AT
*
15300787 TTTATAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAG
63 TTTACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAG
15300845 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
*
15300910 ACAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
66 ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAG
15300965 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
15301018 TAAATATGAT
Statistics
Matches: 165, Mismatches: 5, Indels: 6
0.94 0.03 0.03
Matches are distributed among these distances:
119 6 0.04
120 157 0.95
121 2 0.01
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (120 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTT
ACAGTATCATATATTATGATTTGAGTAAATTAATATAAGAATATTAATTATTAAG
Found at i:15300885 original size:15 final size:15
Alignment explanation
Indices: 15300850--15300901 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
15300840 TTAAGAATTT
*
15300850 TATTAAATTAT-ATA
1 TATTTAATTATAATA
15300864 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
15300878 TATTTAATAATAAT-
1 TATTTAATTATAATA
15300892 TATGTTAATT
1 TAT-TTAATT
15300902 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:15301000 original size:16 final size:16
Alignment explanation
Indices: 15300979--15301020 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
15300969 TTATTAAATT
*
15300979 ATATATTTTAATTATA
1 ATATATTTTAATAATA
15300995 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
15301010 AT-TATGTTTAA
1 ATATAT-TTTAA
15301021 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:15301005 original size:15 final size:15
Alignment explanation
Indices: 15300970--15301011 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
15300960 TTAAGAATTT
*
15300970 TATTAAATTAT-ATA
1 TATTTAATTATAATA
15300984 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
15300998 TATTTAATAATAAT
1 TATTTAATTATAAT
15301012 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:15301126 original size:157 final size:157
Alignment explanation
Indices: 15300954--15301263 Score: 584
Period size: 157 Copynumber: 2.0 Consensus size: 157
15300944 ATAAGAATAT
*
15300954 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
* *
15301019 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
15301084 TAATAATTTACCAAAACAAATTTCTGG
131 TAATAATTTACCAAAACAAATTTCTGG
15301111 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
15301176 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
15301241 TAATCATTTACCAAAACAAATTT
131 TAATAATTTACCAAAACAAATTT
15301264 ATGCTAAGGG
Statistics
Matches: 149, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
157 149 1.00
ACGTcount: A:0.48, C:0.05, G:0.03, T:0.45
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAAATATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTCTGG
Found at i:15301151 original size:18 final size:17
Alignment explanation
Indices: 15301123--15301157 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
15301113 ATTATTAAGA
*
15301123 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
15301140 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
15301158 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:15302368 original size:19 final size:20
Alignment explanation
Indices: 15302346--15302390 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
15302336 TAAGAAAATG
*
15302346 ATAAAAAAT-GTAAAGAATT
1 ATAAAAAATCATAAAGAATT
*
15302365 AT-AAAATTCATAAAGAATT
1 ATAAAAAATCATAAAGAATT
15302384 ATAAAAA
1 ATAAAAA
15302391 TTATCGTATC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
18 5 0.23
19 13 0.59
20 4 0.18
ACGTcount: A:0.64, C:0.02, G:0.07, T:0.27
Consensus pattern (20 bp):
ATAAAAAATCATAAAGAATT
Found at i:15302710 original size:10 final size:10
Alignment explanation
Indices: 15302652--15302736 Score: 61
Period size: 10 Copynumber: 8.8 Consensus size: 10
15302642 ATATATTCTC
*
15302652 TAATTTTTAG
1 TAATTTTTAA
*
15302662 TAAATTTTAAA
1 T-AATTTTTAA
15302673 TAATTTTT-A
1 TAATTTTTAA
*
15302682 TAATTTTTAT
1 TAATTTTTAA
**
15302692 TAAAATTTAA
1 TAATTTTTAA
*
15302702 TAATTTTTAT
1 TAATTTTTAA
*
15302712 TGATTTTT-A
1 TAATTTTTAA
*
15302721 T--TTTTTTA
1 TAATTTTTAA
15302729 TAATTTTT
1 TAATTTTT
15302737 TTACCACATG
Statistics
Matches: 58, Mismatches: 12, Indels: 10
0.73 0.15 0.12
Matches are distributed among these distances:
7 5 0.09
8 2 0.03
9 10 0.17
10 33 0.57
11 8 0.14
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (10 bp):
TAATTTTTAA
Found at i:15302720 original size:20 final size:20
Alignment explanation
Indices: 15302652--15302736 Score: 70
Period size: 20 Copynumber: 4.4 Consensus size: 20
15302642 ATATATTCTC
* * *
15302652 TAATTTTTAGTAAATTTTAAA
1 TAATTTTTAAT-AATTTTTAT
15302673 TAATTTTT-ATAATTTTTAT
1 TAATTTTTAATAATTTTTAT
**
15302692 TAAAATTTAATAATTTTTAT
1 TAATTTTTAATAATTTTTAT
* *
15302712 TGATTTTT-AT-TTTTTTA-
1 TAATTTTTAATAATTTTTAT
15302729 TAATTTTT
1 TAATTTTT
15302737 TTACCACATG
Statistics
Matches: 53, Mismatches: 10, Indels: 6
0.77 0.14 0.09
Matches are distributed among these distances:
17 7 0.13
18 6 0.11
19 15 0.28
20 17 0.32
21 8 0.15
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (20 bp):
TAATTTTTAATAATTTTTAT
Found at i:15302721 original size:30 final size:30
Alignment explanation
Indices: 15302652--15302722 Score: 99
Period size: 30 Copynumber: 2.4 Consensus size: 30
15302642 ATATATTCTC
* *
15302652 TAATTTTTAGTAAATTTTAAATAATTTTTA
1 TAATTTTTATTAAAATTTAAATAATTTTTA
15302682 TAATTTTTATTAAAATTT-AATAATTTTTA
1 TAATTTTTATTAAAATTTAAATAATTTTTA
*
15302711 TTGATTTTTATT
1 -TAATTTTTATT
15302723 TTTTTATAAT
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 11 0.30
30 26 0.70
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.61
Consensus pattern (30 bp):
TAATTTTTATTAAAATTTAAATAATTTTTA
Found at i:15302737 original size:10 final size:9
Alignment explanation
Indices: 15302652--15302736 Score: 64
Period size: 9 Copynumber: 8.9 Consensus size: 9
15302642 ATATATTCTC
15302652 TAATTTTTA
1 TAATTTTTA
*
15302661 GTAAATTTTAAA
1 -T-AATTTT-TA
15302673 TAATTTTTA
1 TAATTTTTA
15302682 TAATTTTTA
1 TAATTTTTA
* *
15302691 TTAAAATTTAA
1 -T-AATTTTTA
15302702 TAATTTTTA
1 TAATTTTTA
*
15302711 TTGATTTTTA
1 -TAATTTTTA
*
15302721 T-TTTTTTA
1 TAATTTTTA
15302729 TAATTTTT
1 TAATTTTT
15302737 TTACCACATG
Statistics
Matches: 60, Mismatches: 9, Indels: 13
0.73 0.11 0.16
Matches are distributed among these distances:
8 7 0.12
9 22 0.37
10 17 0.28
11 13 0.22
12 1 0.02
ACGTcount: A:0.34, C:0.00, G:0.02, T:0.64
Consensus pattern (9 bp):
TAATTTTTA
Found at i:15304171 original size:16 final size:15
Alignment explanation
Indices: 15304131--15304179 Score: 53
Period size: 16 Copynumber: 3.1 Consensus size: 15
15304121 AGTTGCATAT
**
15304131 AATTACTAAAAATTG
1 AATTACTAAAAATAA
15304146 AATTATCTAAAAATAA
1 AATTA-CTAAAAATAA
15304162 AAGTTACTAAAAAATAA
1 AA-TTACT-AAAAATAA
15304179 A
1 A
15304180 CCCAAAGTAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
15 5 0.17
16 12 0.41
17 12 0.41
ACGTcount: A:0.61, C:0.06, G:0.04, T:0.29
Consensus pattern (15 bp):
AATTACTAAAAATAA
Found at i:15306247 original size:18 final size:19
Alignment explanation
Indices: 15306219--15306255 Score: 67
Period size: 18 Copynumber: 2.0 Consensus size: 19
15306209 TGCAACTTGC
15306219 TTTGTTTGTTGGTATGTTT
1 TTTGTTTGTTGGTATGTTT
15306238 TTTG-TTGTTGGTATGTTT
1 TTTGTTTGTTGGTATGTTT
15306256 GATCAATGTA
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 14 0.78
19 4 0.22
ACGTcount: A:0.05, C:0.00, G:0.27, T:0.68
Consensus pattern (19 bp):
TTTGTTTGTTGGTATGTTT
Found at i:15306830 original size:21 final size:21
Alignment explanation
Indices: 15306806--15306846 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
15306796 CACCTACAGT
*
15306806 GGTATCGTAATATCCACCTTG
1 GGTATCGCAATATCCACCTTG
*
15306827 GGTATCGCGATATCCACCTT
1 GGTATCGCAATATCCACCTT
15306847 CCAAGAGGGA
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:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGTATCGCAATATCCACCTTG
Found at i:15315676 original size:17 final size:17
Alignment explanation
Indices: 15315644--15315677 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
15315634 ATGTATGAGA
*
15315644 AACAATTTCATGTGCTT
1 AACAATTTCATATGCTT
*
15315661 AACAATTTCTTATGCTT
1 AACAATTTCATATGCTT
15315678 GAAACCATTT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.29, C:0.18, G:0.09, T:0.44
Consensus pattern (17 bp):
AACAATTTCATATGCTT
Found at i:15317705 original size:33 final size:32
Alignment explanation
Indices: 15317668--15317810 Score: 106
Period size: 33 Copynumber: 4.3 Consensus size: 32
15317658 TGGCCCTGCC
* * *
15317668 ATGGTCTTACATTTGTAGTGCCATAACCCAGTT
1 ATGGTCTTACATTAG-AATGCCATAACCCAGCT
* *
15317701 ATGGTATTATCATTAGAATGCCATAGCCCAGCT
1 ATGGTCTTA-CATTAGAATGCCATAACCCAGCT
* * *** * *
15317734 ATGATCTTACATATAAACACTGCCATGGTCCAACC
1 ATGGTCTTACAT-TAGA-A-TGCCATAACCCAGCT
* *
15317769 ATGGTCTTACATTCATAATGCCATAACCCAGTT
1 ATGGTCTTACATT-AGAATGCCATAACCCAGCT
15317802 ATGGTCTTA
1 ATGGTCTTA
15317811 TCCATCAATT
Statistics
Matches: 85, Mismatches: 20, Indels: 10
0.74 0.17 0.09
Matches are distributed among these distances:
32 3 0.04
33 50 0.59
34 8 0.09
35 24 0.28
ACGTcount: A:0.29, C:0.23, G:0.15, T:0.32
Consensus pattern (32 bp):
ATGGTCTTACATTAGAATGCCATAACCCAGCT
Found at i:15321980 original size:19 final size:20
Alignment explanation
Indices: 15321956--15321999 Score: 54
Period size: 20 Copynumber: 2.2 Consensus size: 20
15321946 AGCTAAAATT
15321956 AAGTAAAG-AGAGTACACTA
1 AAGTAAAGAAGAGTACACTA
* **
15321975 AAGTAAGGAAGAGTTTACTA
1 AAGTAAAGAAGAGTACACTA
15321995 AAGTA
1 AAGTA
15322000 TTGGGCGCAG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 7 0.33
20 14 0.67
ACGTcount: A:0.50, C:0.07, G:0.23, T:0.20
Consensus pattern (20 bp):
AAGTAAAGAAGAGTACACTA
Found at i:15327806 original size:21 final size:21
Alignment explanation
Indices: 15327780--15327820 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
15327770 TCATTTTTAG
*
15327780 AAGGTGGATATCACGATACCC
1 AAGGTGGATATAACGATACCC
15327801 AAGGTGGATATAACGATACC
1 AAGGTGGATATAACGATACC
15327821 ATTGTAGGTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.37, C:0.20, G:0.24, T:0.20
Consensus pattern (21 bp):
AAGGTGGATATAACGATACCC
Found at i:15330382 original size:19 final size:19
Alignment explanation
Indices: 15330354--15330409 Score: 60
Period size: 19 Copynumber: 3.0 Consensus size: 19
15330344 CTTTTTATAC
* *
15330354 TTTAGATTAAATTTATTAA
1 TTTAGTTTAAATTAATTAA
*
15330373 TTTAGTTTAACTTAATTAA
1 TTTAGTTTAAATTAATTAA
* *
15330392 TTTAATTT-AGTTAATTAA
1 TTTAGTTTAAATTAATTAA
15330410 GACAATTTAC
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
18 9 0.28
19 23 0.72
ACGTcount: A:0.39, C:0.02, G:0.05, T:0.54
Consensus pattern (19 bp):
TTTAGTTTAAATTAATTAA
Found at i:15332165 original size:17 final size:16
Alignment explanation
Indices: 15332143--15332190 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 16
15332133 GAACTTACTA
15332143 TTCATTTTTATGTTAT
1 TTCATTTTTATGTTAT
*
15332159 GTTCATTTTTGT-TCTAT
1 -TTCATTTTTATGT-TAT
*
15332176 TTCATTTATATGTTA
1 TTCATTTTTATGTTA
15332191 CATTGGAATG
Statistics
Matches: 26, Mismatches: 3, Indels: 5
0.76 0.09 0.15
Matches are distributed among these distances:
16 12 0.46
17 14 0.54
ACGTcount: A:0.19, C:0.08, G:0.08, T:0.65
Consensus pattern (16 bp):
TTCATTTTTATGTTAT
Found at i:15336064 original size:66 final size:66
Alignment explanation
Indices: 15335994--15336177 Score: 228
Period size: 66 Copynumber: 2.8 Consensus size: 66
15335984 TGGTGTTCGT
* * * *
15335994 TAGGACATTAAATATGGGGTACATGTGTAAGCCCTTAACTCAGCTATGGCAACGTATGGAGTCCC
1 TAGGACATTAAACATGGGGTACATGTGTAAGACCTTAGCTCAGCTATGGCAACGTATGGAGTCCA
15336059 C
66 C
* * * *
15336060 TAGGACATTAAACATGAGGTACATGTGTAAGACCTTAGCTC-GACTATGGCAATGTGTGGAGTCT
1 TAGGACATTAAACATGGGGTACATGTGTAAGACCTTAGCTCAG-CTATGGCAACGTATGGAGTCC
15336124 AC
65 AC
* * *
15336126 TAAGACATTAAACATGGGGT-TATGTATGTAAGACCATAGCTCAGCTATGGCA
1 TAGGACATTAAACATGGGGTACATG--TGTAAGACCTTAGCTCAGCTATGGCA
15336178 GCATGTAGAG
Statistics
Matches: 102, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
65 4 0.04
66 74 0.73
67 23 0.23
68 1 0.01
ACGTcount: A:0.31, C:0.18, G:0.24, T:0.27
Consensus pattern (66 bp):
TAGGACATTAAACATGGGGTACATGTGTAAGACCTTAGCTCAGCTATGGCAACGTATGGAGTCCA
C
Found at i:15336189 original size:67 final size:66
Alignment explanation
Indices: 15335948--15336192 Score: 226
Period size: 66 Copynumber: 3.7 Consensus size: 66
15335938 AAAAAGAGGT
* * * * * * * ** * *
15335948 TACATGT-TAATACCTGAACTCAGCTAGGGCAACATGTGGTGTTCGTTAGGACATTAAATATGGG
1 TACATGTGTAAGACCTTAGCTCAGCTATGGCAACGTGTGGAGTCCACTAAGACATTAAACATGGG
15336012 G
66 G
* * * * * *
15336013 TACATGTGTAAGCCCTTAACTCAGCTATGGCAACGTATGGAGTCCCCTAGGACATTAAACATGAG
1 TACATGTGTAAGACCTTAGCTCAGCTATGGCAACGTGTGGAGTCCACTAAGACATTAAACATGGG
15336078 G
66 G
* *
15336079 TACATGTGTAAGACCTTAGCTC-GACTATGGCAATGTGTGGAGTCTACTAAGACATTAAACATGG
1 TACATGTGTAAGACCTTAGCTCAG-CTATGGCAACGTGTGGAGTCCACTAAGACATTAAACATGG
15336143 GG
65 GG
* * * * *
15336145 T-TATGTATGTAAGACCATAGCTCAGCTATGGCAGCATGTAGAGTCCAC
1 TACATG--TGTAAGACCTTAGCTCAGCTATGGCAACGTGTGGAGTCCAC
15336193 AGATCAATAA
Statistics
Matches: 148, Mismatches: 27, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
65 11 0.07
66 103 0.70
67 33 0.22
68 1 0.01
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (66 bp):
TACATGTGTAAGACCTTAGCTCAGCTATGGCAACGTGTGGAGTCCACTAAGACATTAAACATGGG
G
Found at i:15352724 original size:24 final size:24
Alignment explanation
Indices: 15352696--15352747 Score: 68
Period size: 24 Copynumber: 2.2 Consensus size: 24
15352686 TTTATAGATC
** *
15352696 AAATAAATTATGCTAATAAATGCT
1 AAATAAATTATAATAATAAATACT
*
15352720 AAATATATTATAATAATAAATACT
1 AAATAAATTATAATAATAAATACT
15352744 AAAT
1 AAAT
15352748 CTTCTAGAAT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.56, C:0.06, G:0.04, T:0.35
Consensus pattern (24 bp):
AAATAAATTATAATAATAAATACT
Found at i:15356652 original size:33 final size:33
Alignment explanation
Indices: 15356615--15356692 Score: 90
Period size: 30 Copynumber: 2.5 Consensus size: 33
15356605 CTTTCTTTTT
*
15356615 TTTTTGTTGAAGAATATGTTTGGATTTTGCATC
1 TTTTTGTTGAAGAATATATTTGGATTTTGCATC
* *
15356648 TTTTTGTT---TAATCTATTTGGATTTTGCATC
1 TTTTTGTTGAAGAATATATTTGGATTTTGCATC
* *
15356678 TGTCTGTTGAAGAAT
1 TTTTTGTTGAAGAAT
15356693 CTTCTTATTC
Statistics
Matches: 36, Mismatches: 6, Indels: 6
0.75 0.12 0.12
Matches are distributed among these distances:
30 25 0.69
33 11 0.31
ACGTcount: A:0.21, C:0.08, G:0.19, T:0.53
Consensus pattern (33 bp):
TTTTTGTTGAAGAATATATTTGGATTTTGCATC
Found at i:15359914 original size:32 final size:31
Alignment explanation
Indices: 15359874--15360013 Score: 148
Period size: 32 Copynumber: 4.5 Consensus size: 31
15359864 AAATTTTAGT
* *
15359874 TTGTTAGATTTTGAAATTATTATGTCTTGAA-T
1 TTGTTAGATATTGAAATTATTATGT-TT-AAGC
15359906 TTGTTAGATATTG--ATTA-TAT-TTTAAGC
1 TTGTTAGATATTGAAATTATTATGTTTAAGC
*
15359933 TTGTTAGATATTGAATTTATTATGTTTTAAGC
1 TTGTTAGATATTGAAATTATTATG-TTTAAGC
* *
15359965 TTGTTGGATATTGAATTTATTATGTTTTAAGC
1 TTGTTAGATATTGAAATTATTATG-TTTAAGC
15359997 TTGTT-GAATATTGAAAT
1 TTGTTAG-ATATTGAAAT
15360014 GATTGACAAT
Statistics
Matches: 96, Mismatches: 5, Indels: 14
0.83 0.04 0.12
Matches are distributed among these distances:
26 2 0.02
27 15 0.16
28 1 0.01
29 6 0.06
30 7 0.07
31 1 0.01
32 64 0.67
ACGTcount: A:0.29, C:0.03, G:0.16, T:0.52
Consensus pattern (31 bp):
TTGTTAGATATTGAAATTATTATGTTTAAGC
Found at i:15359947 original size:59 final size:62
Alignment explanation
Indices: 15359866--15360013 Score: 164
Period size: 59 Copynumber: 2.4 Consensus size: 62
15359856 TAATATTGAA
* * *
15359866 ATTTT-AGTTTGTTAGATTTTGAAATTATTATGTCTTGAA-TTTGTTAGATATTG-A-TTA-T
1 ATTTTAAGCTTGTTAGATATTGAAATTATTATGT-TTGAAGCTTGTTAGATATTGAATTTATT
* * *
15359924 ATTTTAAGCTTGTTAGATATTGAATTTATTATGTTTTAAGCTTGTTGGATATTGAATTTATT
1 ATTTTAAGCTTGTTAGATATTGAAATTATTATGTTTGAAGCTTGTTAGATATTGAATTTATT
15359986 ATGTTTTAAGCTTGTT-GAATATTGAAAT
1 A--TTTTAAGCTTGTTAG-ATATTGAAAT
15360014 GATTGACAAT
Statistics
Matches: 75, Mismatches: 7, Indels: 10
0.82 0.08 0.11
Matches are distributed among these distances:
58 9 0.12
59 37 0.49
60 1 0.01
61 3 0.04
62 2 0.03
63 1 0.01
64 22 0.29
ACGTcount: A:0.28, C:0.03, G:0.16, T:0.53
Consensus pattern (62 bp):
ATTTTAAGCTTGTTAGATATTGAAATTATTATGTTTGAAGCTTGTTAGATATTGAATTTATT
Found at i:15361261 original size:36 final size:36
Alignment explanation
Indices: 15361221--15361292 Score: 94
Period size: 36 Copynumber: 2.0 Consensus size: 36
15361211 AATTTTATTT
15361221 ATTTACAA-ATAAA-TCATTGCAATATAAGTAAAAACA
1 ATTTACAATATAAATTCATT--AATATAAGTAAAAACA
* *
15361257 ATTTACAATATAAATTTATTAATATATGTAAAAACA
1 ATTTACAATATAAATTCATTAATATAAGTAAAAACA
15361293 GCCTTTTCGG
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
36 23 0.72
37 5 0.16
38 4 0.12
ACGTcount: A:0.54, C:0.08, G:0.04, T:0.33
Consensus pattern (36 bp):
ATTTACAATATAAATTCATTAATATAAGTAAAAACA
Found at i:15363113 original size:68 final size:69
Alignment explanation
Indices: 15362952--15363161 Score: 264
Period size: 68 Copynumber: 3.0 Consensus size: 69
15362942 CATCATTTAT
* * * **
15362952 ATACCAAATTAAACAGCATTTATACACCAAAATTTGGACAGT-TTATATACAACAAATGGGCCGC
1 ATACCAAATTAAACAGCATTTTTACACCAAAATTT-AACA-TCATATATACAACAAATGGGCAAC
15363016 ATATAC
64 ATATAC
* * *
15363022 ATACCAAATTTAATAGCACTTTTACACCAAAATTTAACATCATATATACAACAAATGGGCAAC-T
1 ATACCAAATTAAACAGCATTTTTACACCAAAATTTAACATCATATATACAACAAATGGGCAACAT
15363086 ATAC
66 ATAC
* * * *
15363090 ATACCAAATTGAGCAGTATTTTTACACCAAAATTTAACAGCATATATACAACAAATGGG-AAGCA
1 ATACCAAATTAAACAGCATTTTTACACCAAAATTTAACATCATATATACAACAAATGGGCAA-CA
15363154 TATAC
65 TATAC
15363159 ATA
1 ATA
15363162 ATACATCATA
Statistics
Matches: 123, Mismatches: 14, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
67 2 0.02
68 60 0.49
69 30 0.24
70 31 0.25
ACGTcount: A:0.45, C:0.19, G:0.10, T:0.27
Consensus pattern (69 bp):
ATACCAAATTAAACAGCATTTTTACACCAAAATTTAACATCATATATACAACAAATGGGCAACAT
ATAC
Found at i:15364053 original size:41 final size:41
Alignment explanation
Indices: 15363969--15364125 Score: 215
Period size: 41 Copynumber: 3.8 Consensus size: 41
15363959 TTGTATAAAA
* * * * *
15363969 CACCGGCATAAAGCCTGCTAGGCACAAAGCCCGATACATTT
1 CACCGGCACAAAGCCTGCTAGGCATAAAGCCTGATATAATT
* * *
15364010 CACCAGCACAAAGCCTGCTAGACATAAAGTCTGATATAATT
1 CACCGGCACAAAGCCTGCTAGGCATAAAGCCTGATATAATT
* *
15364051 CACCGGCACAGAGCCTGCTAGGCATAAAGCCTAATATAATT
1 CACCGGCACAAAGCCTGCTAGGCATAAAGCCTGATATAATT
*
15364092 CACCGGCACAGAGCCTGCTAGGCATAAAGCCTGA
1 CACCGGCACAAAGCCTGCTAGGCATAAAGCCTGA
15364126 ACTTACAAAA
Statistics
Matches: 102, Mismatches: 14, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 102 1.00
ACGTcount: A:0.34, C:0.29, G:0.20, T:0.18
Consensus pattern (41 bp):
CACCGGCACAAAGCCTGCTAGGCATAAAGCCTGATATAATT
Found at i:15385221 original size:15 final size:15
Alignment explanation
Indices: 15385196--15385231 Score: 65
Period size: 15 Copynumber: 2.5 Consensus size: 15
15385186 TTAATATATG
15385196 TTTTA-TTTTATTTA
1 TTTTATTTTTATTTA
15385210 TTTTATTTTTATTTA
1 TTTTATTTTTATTTA
15385225 TTTTATT
1 TTTTATT
15385232 AATACAACAC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
14 5 0.24
15 16 0.76
ACGTcount: A:0.19, C:0.00, G:0.00, T:0.81
Consensus pattern (15 bp):
TTTTATTTTTATTTA
Found at i:15386237 original size:8 final size:8
Alignment explanation
Indices: 15386224--15386252 Score: 58
Period size: 8 Copynumber: 3.6 Consensus size: 8
15386214 GGGAATTAAG
15386224 TGGAGTGT
1 TGGAGTGT
15386232 TGGAGTGT
1 TGGAGTGT
15386240 TGGAGTGT
1 TGGAGTGT
15386248 TGGAG
1 TGGAG
15386253 GTCTTGTGCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 21 1.00
ACGTcount: A:0.14, C:0.00, G:0.52, T:0.34
Consensus pattern (8 bp):
TGGAGTGT
Found at i:15386408 original size:25 final size:24
Alignment explanation
Indices: 15386363--15386409 Score: 58
Period size: 25 Copynumber: 1.9 Consensus size: 24
15386353 GTGGTTAATA
* * *
15386363 GGGAGTGATTTTAGGAGATAATTG
1 GGGAGAGATTTTAGAAAATAATTG
15386387 GGGAGAGATTATTAGAAAATAAT
1 GGGAGAGATT-TTAGAAAATAAT
15386410 CTGATTATCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 9 0.47
25 10 0.53
ACGTcount: A:0.38, C:0.00, G:0.32, T:0.30
Consensus pattern (24 bp):
GGGAGAGATTTTAGAAAATAATTG
Found at i:15391464 original size:28 final size:28
Alignment explanation
Indices: 15391424--15391479 Score: 112
Period size: 28 Copynumber: 2.0 Consensus size: 28
15391414 GTGGAGAAAG
15391424 AAAATTAAAGAAGATGACATCTTTTTCT
1 AAAATTAAAGAAGATGACATCTTTTTCT
15391452 AAAATTAAAGAAGATGACATCTTTTTCT
1 AAAATTAAAGAAGATGACATCTTTTTCT
15391480 TTTCTTTTGT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 28 1.00
ACGTcount: A:0.43, C:0.11, G:0.11, T:0.36
Consensus pattern (28 bp):
AAAATTAAAGAAGATGACATCTTTTTCT
Found at i:15395848 original size:30 final size:29
Alignment explanation
Indices: 15395771--15395848 Score: 79
Period size: 30 Copynumber: 2.6 Consensus size: 29
15395761 ACGAACACAG
15395771 GGTATGATAG-GAAAATGTAAATGATTACAA
1 GGTATGATAGTGAAAA--TAAATGATTACAA
* * *
15395801 GGTATGAAAATGCAAATAAGAGTGATTAC-A
1 GGTATGATAGTGAAAATAA-A-TGATTACAA
15395831 GGTATGATAGTGAAAATA
1 GGTATGATAGTGAAAATA
15395849 TGAATATTGA
Statistics
Matches: 39, Mismatches: 6, Indels: 6
0.76 0.12 0.12
Matches are distributed among these distances:
29 3 0.08
30 25 0.64
31 11 0.28
ACGTcount: A:0.46, C:0.04, G:0.24, T:0.26
Consensus pattern (29 bp):
GGTATGATAGTGAAAATAAATGATTACAA
Found at i:15414692 original size:18 final size:18
Alignment explanation
Indices: 15414669--15414706 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
15414659 CGCTTCCGAT
15414669 CGTTGGTCTAACAGAAGC
1 CGTTGGTCTAACAGAAGC
15414687 CGTTGGTCTAACAGAAGC
1 CGTTGGTCTAACAGAAGC
15414705 CG
1 CG
15414707 CATATCTCGA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (18 bp):
CGTTGGTCTAACAGAAGC
Found at i:15415586 original size:15 final size:15
Alignment explanation
Indices: 15415568--15415621 Score: 60
Period size: 15 Copynumber: 3.8 Consensus size: 15
15415558 TATATAATAT
15415568 AATATATTAAATTAA
1 AATATATTAAATTAA
*
15415583 AATATA-TCAA-TAA
1 AATATATTAAATTAA
15415596 AATAT-TTAAATTAA
1 AATATATTAAATTAA
* *
15415610 ATTACATTAAAT
1 AATATATTAAAT
15415622 ATAATAAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
13 11 0.34
14 9 0.28
15 12 0.38
ACGTcount: A:0.57, C:0.04, G:0.00, T:0.39
Consensus pattern (15 bp):
AATATATTAAATTAA
Found at i:15415604 original size:27 final size:27
Alignment explanation
Indices: 15415557--15415610 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 27
15415547 GCCTATATAT
*
15415557 ATATATAATATAATATATTAAATTAAA
1 ATATATAATAAAATATATTAAATTAAA
15415584 ATATATCAATAAAATAT-TTAAATTAAA
1 ATATAT-AATAAAATATATTAAATTAAA
15415611 TTACATTAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
27 16 0.64
28 9 0.36
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (27 bp):
ATATATAATAAAATATATTAAATTAAA
Found at i:15415622 original size:28 final size:28
Alignment explanation
Indices: 15415563--15415627 Score: 78
Period size: 28 Copynumber: 2.3 Consensus size: 28
15415553 ATATATATAT
* *
15415563 AATATAATATATTAAATTAAAATATATC
1 AATATAATATATTAAATTAAAATACATA
* *
15415591 AATAAAATAT-TTAAATTAAATTACATTA
1 AATATAATATATTAAATTAAAATACA-TA
15415619 AATATAATA
1 AATATAATA
15415628 AAAAAATTCT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
27 13 0.42
28 18 0.58
ACGTcount: A:0.58, C:0.03, G:0.00, T:0.38
Consensus pattern (28 bp):
AATATAATATATTAAATTAAAATACATA
Found at i:15419553 original size:42 final size:43
Alignment explanation
Indices: 15419490--15419586 Score: 115
Period size: 42 Copynumber: 2.3 Consensus size: 43
15419480 TGAGATTTAT
* * * *
15419490 GTGTAAGACCATGTCTGGGACATTGGCGTC-GTATATGATTAC
1 GTGTAAGACCATATCTAGGACAGTGGCATCAGTATATGATTAC
* * *
15419532 GTGTAAGACCCTATCTAGGACAGTGGCATCATTATTTGATTAC
1 GTGTAAGACCATATCTAGGACAGTGGCATCAGTATATGATTAC
*
15419575 ATGTAAGACCAT
1 GTGTAAGACCAT
15419587 GTCTGGGATG
Statistics
Matches: 45, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
42 25 0.56
43 20 0.44
ACGTcount: A:0.28, C:0.18, G:0.24, T:0.31
Consensus pattern (43 bp):
GTGTAAGACCATATCTAGGACAGTGGCATCAGTATATGATTAC
Found at i:15419602 original size:43 final size:43
Alignment explanation
Indices: 15419445--15419603 Score: 146
Period size: 43 Copynumber: 3.7 Consensus size: 43
15419435 AATGTGACAT
* *
15419445 CGTGTAAGACCACGTCTGGGACGTTGGCCTCGATT-TGA-GATTTA
1 CGTGTAAGACCATGTCTGGGACGTTGGCATC-ATTAT-ATGA-TTA
* * * *
15419489 TGTGTAAGACCATGTCTGGGACATTGGCGTC-GTATATGATTA
1 CGTGTAAGACCATGTCTGGGACGTTGGCATCATTATATGATTA
* * * *
15419531 CGTGTAAGACCCTATCTAGGACAG-TGGCATCATTATTTGATTA
1 CGTGTAAGACCATGTCTGGGAC-GTTGGCATCATTATATGATTA
* *
15419574 CATGTAAGACCATGTCTGGGATGTTGGCAT
1 CGTGTAAGACCATGTCTGGGACGTTGGCAT
15419604 TGTACGAGCT
Statistics
Matches: 92, Mismatches: 18, Indels: 11
0.76 0.15 0.09
Matches are distributed among these distances:
42 30 0.33
43 35 0.38
44 27 0.29
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (43 bp):
CGTGTAAGACCATGTCTGGGACGTTGGCATCATTATATGATTA
Found at i:15420543 original size:13 final size:13
Alignment explanation
Indices: 15420525--15420552 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
15420515 TATTTATTAG
15420525 TGATAATTAGTTA
1 TGATAATTAGTTA
15420538 TGATAATTAGTTA
1 TGATAATTAGTTA
15420551 TG
1 TG
15420553 TCTAGCCTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.36, C:0.00, G:0.18, T:0.46
Consensus pattern (13 bp):
TGATAATTAGTTA
Found at i:15421486 original size:16 final size:16
Alignment explanation
Indices: 15421467--15421497 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
15421457 AGAATTGCAA
15421467 AACAAAGAAGCAGCAG
1 AACAAAGAAGCAGCAG
15421483 AACAAAGAAGCAGCA
1 AACAAAGAAGCAGCA
15421498 AATATGGTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.58, C:0.19, G:0.23, T:0.00
Consensus pattern (16 bp):
AACAAAGAAGCAGCAG
Found at i:15423958 original size:7 final size:7
Alignment explanation
Indices: 15423942--15423980 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
15423932 TTGAGTAATA
*
15423942 CATCATT
1 CATCAGT
15423949 CATCAGT
1 CATCAGT
15423956 CATCAGT
1 CATCAGT
15423963 CATCAGT
1 CATCAGT
15423970 CATCAG-
1 CATCAGT
15423976 CATCA
1 CATCA
15423981 ATCCATTGAA
Statistics
Matches: 31, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
6 5 0.16
7 26 0.84
ACGTcount: A:0.31, C:0.31, G:0.10, T:0.28
Consensus pattern (7 bp):
CATCAGT
Found at i:15425639 original size:7 final size:7
Alignment explanation
Indices: 15425623--15425657 Score: 63
Period size: 7 Copynumber: 5.1 Consensus size: 7
15425613 GGGTAAGTGT
15425623 TAAT-AA
1 TAATCAA
15425629 TAATCAA
1 TAATCAA
15425636 TAATCAA
1 TAATCAA
15425643 TAATCAA
1 TAATCAA
15425650 TAATCAA
1 TAATCAA
15425657 T
1 T
15425658 TTATCAGATT
Statistics
Matches: 28, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 4 0.14
7 24 0.86
ACGTcount: A:0.57, C:0.11, G:0.00, T:0.31
Consensus pattern (7 bp):
TAATCAA
Found at i:15428446 original size:6 final size:6
Alignment explanation
Indices: 15428435--15428462 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
15428425 ACCATGAAAT
15428435 TCATTA TCATTA TCATTA TCATTA TCAT
1 TCATTA TCATTA TCATTA TCATTA TCAT
15428463 GGGCATAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.32, C:0.18, G:0.00, T:0.50
Consensus pattern (6 bp):
TCATTA
Found at i:15430781 original size:14 final size:14
Alignment explanation
Indices: 15430752--15430780 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
15430742 CCTCGTTTCA
15430752 TTATTTTTTTACTT
1 TTATTTTTTTACTT
15430766 TTATTTTTTTA-TT
1 TTATTTTTTTACTT
15430779 TT
1 TT
15430781 TTATACGCAA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 4 0.27
14 11 0.73
ACGTcount: A:0.14, C:0.03, G:0.00, T:0.83
Consensus pattern (14 bp):
TTATTTTTTTACTT
Found at i:15435551 original size:31 final size:32
Alignment explanation
Indices: 15435485--15435564 Score: 94
Period size: 31 Copynumber: 2.5 Consensus size: 32
15435475 CTAACTAACC
* * *
15435485 TAAAATATCCC-TATTAATTTTTTTATATTATT
1 TAAAATA-CCCTTATTAATTTATTTATACTACT
15435517 TAAAATACCCTTATTAA-TTATTTATACTACT
1 TAAAATACCCTTATTAATTTATTTATACTACT
15435548 TAAAATA-CCTCTATTAA
1 TAAAATACCCT-TATTAA
15435565 CTCTTAAACA
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
30 3 0.07
31 27 0.63
32 13 0.30
ACGTcount: A:0.39, C:0.14, G:0.00, T:0.47
Consensus pattern (32 bp):
TAAAATACCCTTATTAATTTATTTATACTACT
Found at i:15447250 original size:25 final size:25
Alignment explanation
Indices: 15447222--15447329 Score: 75
Period size: 24 Copynumber: 4.4 Consensus size: 25
15447212 CTTATGAGCG
*
15447222 TCCCGATATATGGCTCTTTAGAACT
1 TCCCGATATATGGCTCTCTAGAACT
*
15447247 TCCCGAT-TAATGGCTCTCTAGAGCT
1 TCCCGATAT-ATGGCTCTCTAGAACT
*
15447272 TCTCC-ATAT-TGGCT-TGCTTGAACT
1 TC-CCGATATATGGCTCT-CTAGAACT
* * *
15447296 TCTCAAT-TATGGCTCT-TATGAGCT
1 TCCCGATATATGGCTCTCTA-GAACT
*
15447320 TCCCGTTATA
1 TCCCGATATA
15447330 CAGCTCAAAT
Statistics
Matches: 64, Mismatches: 10, Indels: 18
0.70 0.11 0.20
Matches are distributed among these distances:
23 4 0.06
24 29 0.45
25 28 0.44
26 3 0.05
ACGTcount: A:0.20, C:0.25, G:0.17, T:0.38
Consensus pattern (25 bp):
TCCCGATATATGGCTCTCTAGAACT
Found at i:15447319 original size:48 final size:50
Alignment explanation
Indices: 15447209--15447329 Score: 128
Period size: 48 Copynumber: 2.5 Consensus size: 50
15447199 ACACACCACA
* *
15447209 GCTCTTATGAGCGTCCCGATATATGGCTCTTTAGAACTTCCCGATTAATG
1 GCTCTTATGAGCTTCCCGATATATGGCTCTTTAGAACTTCCCAATTAATG
*
15447259 GCTCTCTA-GAGCTTCTCC-ATAT-TGGCT-TGCTT-GAACTTCTCAATT-ATG
1 GCTCT-TATGAGCTTC-CCGATATATGGCTCT--TTAGAACTTCCCAATTAATG
*
15447307 GCTCTTATGAGCTTCCCGTTATA
1 GCTCTTATGAGCTTCCCGATATA
15447330 CAGCTCAAAT
Statistics
Matches: 60, Mismatches: 4, Indels: 15
0.76 0.05 0.19
Matches are distributed among these distances:
47 4 0.07
48 19 0.32
49 16 0.27
50 17 0.28
51 4 0.07
ACGTcount: A:0.20, C:0.25, G:0.18, T:0.37
Consensus pattern (50 bp):
GCTCTTATGAGCTTCCCGATATATGGCTCTTTAGAACTTCCCAATTAATG
Found at i:15447321 original size:24 final size:24
Alignment explanation
Indices: 15447209--15447328 Score: 74
Period size: 25 Copynumber: 5.0 Consensus size: 24
15447199 ACACACCACA
*
15447209 GCTCTTATGAGCGTCCCGATATATG
1 GCTCTTATGAGCTTCCCGAT-TATG
*
15447234 GCTCTT-TAGAACTTCCCGATTAATG
1 GCTCTTAT-GAGCTTCCCGATT-ATG
15447259 GCTCTCTA-GAGCTTCTCC-A-TATTG
1 GCTCT-TATGAGCTTC-CCGATTA-TG
* * *
15447283 GCT-TGCT-TGAACTTCTCAATTATG
1 GCTCT--TATGAGCTTCCCGATTATG
15447307 GCTCTTATGAGCTTCCCG-TTAT
1 GCTCTTATGAGCTTCCCGATTAT
15447329 ACAGCTCAAA
Statistics
Matches: 75, Mismatches: 8, Indels: 26
0.69 0.07 0.24
Matches are distributed among these distances:
23 8 0.11
24 30 0.40
25 34 0.45
26 3 0.04
ACGTcount: A:0.19, C:0.25, G:0.18, T:0.38
Consensus pattern (24 bp):
GCTCTTATGAGCTTCCCGATTATG
Found at i:15453004 original size:9 final size:9
Alignment explanation
Indices: 15452981--15453076 Score: 93
Period size: 9 Copynumber: 10.2 Consensus size: 9
15452971 TTAATTAATT
15452981 TTAATTTTAA
1 TTAA-TTTAA
*
15452991 TTAATTTGA
1 TTAATTTAA
15453000 TTAATTTAA
1 TTAATTTAA
* * *
15453009 TTTTACTTGA
1 -TTAATTTAA
15453019 TTAATTTAA
1 TTAATTTAA
*
15453028 TTAATTTGA
1 TTAATTTAA
*
15453037 TTAAATTAAA
1 TT-AATTTAA
15453047 TTAAATTTAA
1 TT-AATTTAA
*
15453057 TTAATTTGA
1 TTAATTTAA
15453066 TTAATTTAA
1 TTAATTTAA
15453075 TT
1 TT
15453077 TTACTTGATC
Statistics
Matches: 70, Mismatches: 14, Indels: 5
0.79 0.16 0.06
Matches are distributed among these distances:
9 44 0.63
10 26 0.37
ACGTcount: A:0.40, C:0.01, G:0.04, T:0.55
Consensus pattern (9 bp):
TTAATTTAA
Found at i:15453005 original size:19 final size:18
Alignment explanation
Indices: 15452981--15453072 Score: 103
Period size: 19 Copynumber: 4.9 Consensus size: 18
15452971 TTAATTAATT
15452981 TTAATTTTAATTAATTTGA
1 TTAA-TTTAATTAATTTGA
* *
15453000 TTAATTTAATTTTACTTGA
1 TTAATTTAA-TTAATTTGA
15453019 TTAATTTAATTAATTTGA
1 TTAATTTAATTAATTTGA
* *
15453037 TTAAATTAAATTAAATTTAA
1 TT-AATTTAATT-AATTTGA
*
15453057 TTAATTTGATTAATTT
1 TTAATTTAATTAATTT
15453073 AATTTTACTT
Statistics
Matches: 62, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
18 19 0.31
19 35 0.56
20 8 0.13
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.55
Consensus pattern (18 bp):
TTAATTTAATTAATTTGA
Found at i:15453010 original size:5 final size:5
Alignment explanation
Indices: 15452971--15453077 Score: 66
Period size: 5 Copynumber: 22.4 Consensus size: 5
15452961 ATTGTTTGAC
* * * *
15452971 TTAA- TTAATT TTAATT TTAA- TTAAT TTGA- TTAAT TTAAT TTTAC TTGA-
1 TTAAT TTAA-T TTAA-T TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT
* * * * *
15453019 TTAAT TTAA- TTAAT TTGAT TAAAT TAAAT TAAAT TTAA- TTAAT TTGA-
1 TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT TTAAT
15453066 TTAAT TTAAT TT
1 TTAAT TTAAT TT
15453078 TACTTGATCA
Statistics
Matches: 83, Mismatches: 12, Indels: 15
0.75 0.11 0.14
Matches are distributed among these distances:
4 25 0.30
5 48 0.58
6 10 0.12
ACGTcount: A:0.39, C:0.01, G:0.04, T:0.56
Consensus pattern (5 bp):
TTAAT
Found at i:15456263 original size:29 final size:30
Alignment explanation
Indices: 15456207--15456263 Score: 80
Period size: 29 Copynumber: 1.9 Consensus size: 30
15456197 ACCCTTAAAA
** *
15456207 TATTTACACTATTGGTCCTTCAACTTTTCG
1 TATTTACACTATTGACCCTTCAAATTTTCG
15456237 TATTTACACT-TTGACCCTTCAAATTTT
1 TATTTACACTATTGACCCTTCAAATTTT
15456264 GAGTTTTTAC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 14 0.58
30 10 0.42
ACGTcount: A:0.23, C:0.23, G:0.07, T:0.47
Consensus pattern (30 bp):
TATTTACACTATTGACCCTTCAAATTTTCG
Found at i:15458182 original size:31 final size:31
Alignment explanation
Indices: 15458144--15458206 Score: 126
Period size: 31 Copynumber: 2.0 Consensus size: 31
15458134 GCACGGGTGC
15458144 TAGACTATATCTAACTAAATTTTGTTGATTA
1 TAGACTATATCTAACTAAATTTTGTTGATTA
15458175 TAGACTATATCTAACTAAATTTTGTTGATTA
1 TAGACTATATCTAACTAAATTTTGTTGATTA
15458206 T
1 T
15458207 CTGTATGCAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 32 1.00
ACGTcount: A:0.35, C:0.10, G:0.10, T:0.46
Consensus pattern (31 bp):
TAGACTATATCTAACTAAATTTTGTTGATTA
Found at i:15465504 original size:36 final size:36
Alignment explanation
Indices: 15465459--15465534 Score: 134
Period size: 36 Copynumber: 2.1 Consensus size: 36
15465449 TTTAGGGTCA
* *
15465459 GTTTTAGGTGTAAGGGAGGAAACTTCTAGATTTTAG
1 GTTTGAGGTGTAAGGGAGGAAACTTCTAGATTCTAG
15465495 GTTTGAGGTGTAAGGGAGGAAACTTCTAGATTCTAG
1 GTTTGAGGTGTAAGGGAGGAAACTTCTAGATTCTAG
15465531 GTTT
1 GTTT
15465535 CCTGTTAATG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
36 38 1.00
ACGTcount: A:0.26, C:0.07, G:0.32, T:0.36
Consensus pattern (36 bp):
GTTTGAGGTGTAAGGGAGGAAACTTCTAGATTCTAG
Found at i:15480492 original size:23 final size:23
Alignment explanation
Indices: 15480466--15480509 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
15480456 TTTCTTTTGT
15480466 TTCTTT-TTCTAATTCATTTTCTC
1 TTCTTTCTTC-AATTCATTTTCTC
*
15480489 TTCTTTCTTCAATTCTTTTTC
1 TTCTTTCTTCAATTCATTTTC
15480510 ACTCTCAATC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 16 0.84
24 3 0.16
ACGTcount: A:0.11, C:0.23, G:0.00, T:0.66
Consensus pattern (23 bp):
TTCTTTCTTCAATTCATTTTCTC
Done.