Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr3
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: 42799318
ACGTcount: A:0.32, C:0.17, G:0.16, T:0.32
Warning! 891409 characters in sequence are not A, C, G, or T
File 37 of 141
Found at i:11100303 original size:13 final size:13
Alignment explanation
Indices: 11100285--11100313 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
11100275 TAGTTTCTTC
11100285 AAAAAAAATTCAA
1 AAAAAAAATTCAA
11100298 AAAAAAAATTCAA
1 AAAAAAAATTCAA
11100311 AAA
1 AAA
11100314 TTTTTTTTAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.79, C:0.07, G:0.00, T:0.14
Consensus pattern (13 bp):
AAAAAAAATTCAA
Found at i:11100390 original size:17 final size:16
Alignment explanation
Indices: 11100368--11100411 Score: 79
Period size: 16 Copynumber: 2.7 Consensus size: 16
11100358 GATATCAAGT
11100368 TGAAAAAAAAAATTTCG
1 TGAAAAAAAAAA-TTCG
11100385 TGAAAAAAAAAATTCG
1 TGAAAAAAAAAATTCG
11100401 TGAAAAAAAAA
1 TGAAAAAAAAA
11100412 TAAAAAGCTA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
16 15 0.56
17 12 0.44
ACGTcount: A:0.66, C:0.05, G:0.11, T:0.18
Consensus pattern (16 bp):
TGAAAAAAAAAATTCG
Found at i:11109815 original size:21 final size:22
Alignment explanation
Indices: 11109799--11109847 Score: 75
Period size: 21 Copynumber: 2.3 Consensus size: 22
11109789 ATATAAGTGC
11109799 TAAACAGG-AACCCATAAGGGT
1 TAAACAGGAAACCCATAAGGGT
*
11109820 TGAAC-GGAAACCCATAAGGGT
1 TAAACAGGAAACCCATAAGGGT
11109841 TAAACAG
1 TAAACAG
11109848 AGCTCAAAAG
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
20 2 0.08
21 21 0.88
22 1 0.04
ACGTcount: A:0.43, C:0.18, G:0.24, T:0.14
Consensus pattern (22 bp):
TAAACAGGAAACCCATAAGGGT
Found at i:11109887 original size:21 final size:21
Alignment explanation
Indices: 11109807--11109906 Score: 85
Period size: 21 Copynumber: 4.8 Consensus size: 21
11109797 GCTAAACAGG
*
11109807 AACCCATAAGGGTTGAACGGA
1 AACCCATAAGGGTTGAACGAA
* *
11109828 AACCCATAAGGGTTAAAC-AG
1 AACCCATAAGGGTTGAACGAA
* * * * *
11109848 AGCTCAAAAGAGCTGAACGAA
1 AACCCATAAGGGTTGAACGAA
*
11109869 AACCCATTAGGGTTGAACGAA
1 AACCCATAAGGGTTGAACGAA
* * *
11109890 AACTCATATGAGTTGAA
1 AACCCATAAGGGTTGAA
11109907 TAGAAGCTCG
Statistics
Matches: 58, Mismatches: 20, Indels: 2
0.73 0.25 0.03
Matches are distributed among these distances:
20 12 0.21
21 46 0.79
ACGTcount: A:0.42, C:0.18, G:0.23, T:0.17
Consensus pattern (21 bp):
AACCCATAAGGGTTGAACGAA
Found at i:11110532 original size:10 final size:10
Alignment explanation
Indices: 11110517--11110541 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
11110507 TAGTCCTAAA
11110517 ATCAATATCT
1 ATCAATATCT
11110527 ATCAATATCT
1 ATCAATATCT
11110537 ATCAA
1 ATCAA
11110542 AATCACTTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.44, C:0.20, G:0.00, T:0.36
Consensus pattern (10 bp):
ATCAATATCT
Found at i:11117204 original size:9 final size:8
Alignment explanation
Indices: 11117190--11117215 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
11117180 GCGTTACTGG
11117190 AAAAAAAT
1 AAAAAAAT
11117198 AAAAAAAT
1 AAAAAAAT
11117206 AAAAAAAT
1 AAAAAAAT
11117214 AA
1 AA
11117216 CAGAATTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (8 bp):
AAAAAAAT
Found at i:11123242 original size:30 final size:31
Alignment explanation
Indices: 11123203--11123262 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 31
11123193 GGAGGGGGGA
*
11123203 TGGGAAGGGAATAAAAGTTTTAGGGGAAAAG
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
* *
11123234 TGGG-AGGGAGTAAAAATTTTGGGGGAAAA
1 TGGGAAGGGAATAAAAATTTTAGGGGAAAA
11123263 TAAAAGGTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
30 22 0.85
31 4 0.15
ACGTcount: A:0.40, C:0.00, G:0.40, T:0.20
Consensus pattern (31 bp):
TGGGAAGGGAATAAAAATTTTAGGGGAAAAG
Found at i:11127084 original size:49 final size:49
Alignment explanation
Indices: 11127005--11127123 Score: 157
Period size: 49 Copynumber: 2.4 Consensus size: 49
11126995 ATATCACACC
* * * * * * *
11127005 AATAATGTGGTTAAGCCACCAGATAGTGCAGACAAGCTGCCAGATATAG
1 AATATTGTGGTCAAGCCACCAAATAATGCAGACAAACTGCAAGATACAG
*
11127054 AATATTGTGGTCAAGCCATCAAATAATGCAGACAAACTGCAAGATACAG
1 AATATTGTGGTCAAGCCACCAAATAATGCAGACAAACTGCAAGATACAG
*
11127103 AATATTATGGTCAAGCCACCA
1 AATATTGTGGTCAAGCCACCA
11127124 GATTTGCAAA
Statistics
Matches: 60, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
49 60 1.00
ACGTcount: A:0.39, C:0.19, G:0.20, T:0.21
Consensus pattern (49 bp):
AATATTGTGGTCAAGCCACCAAATAATGCAGACAAACTGCAAGATACAG
Found at i:11127335 original size:46 final size:46
Alignment explanation
Indices: 11127277--11127374 Score: 142
Period size: 46 Copynumber: 2.1 Consensus size: 46
11127267 TTTACATGCG
*
11127277 AAGATCTCATTACGAATTAACACAGTGACATACTTAACATGAGAAT
1 AAGATTTCATTACGAATTAACACAGTGACATACTTAACATGAGAAT
* * * * *
11127323 CAGATTTCATTACGAATTAATATAGTGGCATACTTAACATGCGAAT
1 AAGATTTCATTACGAATTAACACAGTGACATACTTAACATGAGAAT
11127369 AAGATT
1 AAGATT
11127375 AATAACAGAA
Statistics
Matches: 45, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
46 45 1.00
ACGTcount: A:0.41, C:0.15, G:0.14, T:0.30
Consensus pattern (46 bp):
AAGATTTCATTACGAATTAACACAGTGACATACTTAACATGAGAAT
Found at i:11128335 original size:15 final size:15
Alignment explanation
Indices: 11128315--11128344 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
11128305 AAGAAAAAAA
*
11128315 AGGTGATTTTGGTGG
1 AGGTGATTTAGGTGG
11128330 AGGTGATTTAGGTGG
1 AGGTGATTTAGGTGG
11128345 TGAAATGGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.17, C:0.00, G:0.47, T:0.37
Consensus pattern (15 bp):
AGGTGATTTAGGTGG
Found at i:11141848 original size:19 final size:19
Alignment explanation
Indices: 11141824--11141875 Score: 60
Period size: 14 Copynumber: 3.0 Consensus size: 19
11141814 ATTAAAAATA
11141824 ATAATTAAATTAATATTAT
1 ATAATTAAATTAATATTAT
11141843 ATAATT--ATTAA-A--AT
1 ATAATTAAATTAATATTAT
*
11141857 ATAATTAAATTATTATTAT
1 ATAATTAAATTAATATTAT
11141876 CTTATATATA
Statistics
Matches: 27, Mismatches: 1, Indels: 10
0.71 0.03 0.26
Matches are distributed among these distances:
14 8 0.30
16 5 0.19
17 6 0.22
19 8 0.30
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (19 bp):
ATAATTAAATTAATATTAT
Found at i:11141863 original size:22 final size:22
Alignment explanation
Indices: 11141819--11141874 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 22
11141809 ATATGATTAA
* *
11141819 AAATAATAATTAAATTAATATT
1 AAATAATTATTAAAATAATATT
*
11141841 ATATAATTATTAAAAT-ATAATT
1 AAATAATTATTAAAATAAT-ATT
*
11141863 AAATTATTATTA
1 AAATAATTATTA
11141875 TCTTATATAT
Statistics
Matches: 28, Mismatches: 5, Indels: 2
0.80 0.14 0.06
Matches are distributed among these distances:
21 2 0.07
22 26 0.93
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (22 bp):
AAATAATTATTAAAATAATATT
Found at i:11144517 original size:13 final size:13
Alignment explanation
Indices: 11144499--11144525 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
11144489 AATTTGAAGT
11144499 TGTTAAATTATGA
1 TGTTAAATTATGA
11144512 TGTTAAATTATGA
1 TGTTAAATTATGA
11144525 T
1 T
11144526 CTGATTCTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.37, C:0.00, G:0.15, T:0.48
Consensus pattern (13 bp):
TGTTAAATTATGA
Found at i:11151036 original size:12 final size:12
Alignment explanation
Indices: 11151019--11151045 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
11151009 ACTTGAAAAA
11151019 AAATGATATCTT
1 AAATGATATCTT
11151031 AAATGATATCTT
1 AAATGATATCTT
11151043 AAA
1 AAA
11151046 AGAAATATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.48, C:0.07, G:0.07, T:0.37
Consensus pattern (12 bp):
AAATGATATCTT
Found at i:11160753 original size:16 final size:16
Alignment explanation
Indices: 11160732--11160769 Score: 60
Period size: 15 Copynumber: 2.4 Consensus size: 16
11160722 AATTCAAAAT
11160732 AAAAAATTCGTAATTA
1 AAAAAATTCGTAATTA
*
11160748 AAAAAA-TCGTGATTA
1 AAAAAATTCGTAATTA
11160763 AAAAAAT
1 AAAAAAT
11160770 AAAAAGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
15 14 0.70
16 6 0.30
ACGTcount: A:0.61, C:0.05, G:0.08, T:0.26
Consensus pattern (16 bp):
AAAAAATTCGTAATTA
Found at i:11162923 original size:15 final size:15
Alignment explanation
Indices: 11162892--11162938 Score: 58
Period size: 16 Copynumber: 2.9 Consensus size: 15
11162882 AGAAAATGAA
11162892 AAAAAAAGTGAGAAAAG
1 AAAAAAA-TGAG-AAAG
11162909 AAAAAAATGAGAAAG
1 AAAAAAATGAGAAAG
*
11162924 AAAAAGAATGTGAAA
1 AAAAA-AATGAGAAA
11162939 AATTGAGTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
15 9 0.32
16 12 0.43
17 7 0.25
ACGTcount: A:0.70, C:0.00, G:0.21, T:0.09
Consensus pattern (15 bp):
AAAAAAATGAGAAAG
Found at i:11162925 original size:20 final size:20
Alignment explanation
Indices: 11162845--11162927 Score: 62
Period size: 20 Copynumber: 4.0 Consensus size: 20
11162835 AACACAAAAG
* *
11162845 AGAAGAAAAATGAAAAAAAGAA
1 AGAA-AAAAATGAGAAAGA-AA
*
11162867 AG-AAAAAATCACGAAAGAAA
1 AGAAAAAAATGA-GAAAGAAA
* **
11162887 ATGAAAAAAA-AAGTGAGAAA
1 A-GAAAAAAATGAGAAAGAAA
11162907 AGAAAAAAATGAGAAAGAAA
1 AGAAAAAAATGAGAAAGAAA
11162927 A
1 A
11162928 AGAATGTGAA
Statistics
Matches: 48, Mismatches: 9, Indels: 10
0.72 0.13 0.15
Matches are distributed among these distances:
19 8 0.17
20 25 0.52
21 7 0.15
22 8 0.17
ACGTcount: A:0.73, C:0.02, G:0.18, T:0.06
Consensus pattern (20 bp):
AGAAAAAAATGAGAAAGAAA
Found at i:11169700 original size:207 final size:204
Alignment explanation
Indices: 11169232--11169961 Score: 661
Period size: 207 Copynumber: 3.5 Consensus size: 204
11169222 AATCTCTCCG
* * * * *
11169232 AGTTAGTTGATTTAAGATCGCAACCTAAATCTCTCTAAGTTGACAGATTTAAGATCACAACTCCT
1 AGTTAGTTGATTTAAGATCGCAACCTAAATCTCTCTAAATAG-CTGATTTAAGATCTCAACTCCC
* * * *
11169297 AAACAGC-TCGCAAACTTACGTTTCCAACTGATGTTTAAAGATTAGTTGATTTAAGATCGCAACT
65 AAATAGCTTCG-GAAC-TACG-TTCCAGCTGATGTTTAAAGGTTAGTTGATTTAAGATCGCAACT
* * * * * *
11169361 AAATCTATTTGAGTTAACAT-ATTTAAGATCGCAACTCCTAAACAGCTCGCGGACCTACGTTCCC
127 ATATCTCTCTGAGTTAA-ATGATTTAAGATCGCAACTCCCAAACAACTCGCAGACCTACGTTCCC
11169425 AGATGATATTTAAA
191 AGATGATATTTAAA
* * ** *
11169439 GGTTAGTTGATTTAATATCGCAACCTAAATCTCTCTGAGTTAGCTGAATTAAGATCTCAACTCCC
1 AGTTAGTTGATTTAAGATCGCAACCTAAATCTCTCT-AAATAGCTGATTTAAGATCTCAACTCCC
* *
11169504 AAATAGCTTACGGAACTATGTTCCTAGCTGATGTTTAAAGGTTAGCTT-ATTTAATATCGCAACT
65 AAATAGCTT-CGGAACTACGTTCC-AGCTGATGTTTAAAGGTTAG-TTGATTTAAGATCGCAAC-
** * *
11169568 TATATCTCTCTGAGTTAGTTGATTTAAGATCGCAACTCCCAAACAACTCGCAGACCTATGTTCTC
126 TATATCTCTCTGAGTTAAATGATTTAAGATCGCAACTCCCAAACAACTCGCAGACCTACGTTCCC
* *
11169633 AGTTGATGTTTAAA
191 AGATGATATTTAAA
* * * * *
11169647 AGTTATTTGACTTAAGATTGCAACCTATATCTCTCTAAATAGTTGATTTAAGAT-TGCAACTCCC
1 AGTTAGTTGATTTAAGATCGCAACCTAAATCTCTCTAAATAGCTGATTTAAGATCT-CAACTCCC
* * * *
11169711 AAATAAC-TCGCAGACCTACATTCCCAGTTGATGTTT-AAGGTTAGTTGATTTAAGATCGCAACC
65 AAATAGCTTCG--GAACTACGTT-CCAGCTGATGTTTAAAGGTTAGTTGATTTAAGATCGCAA-C
* * * * * * *
11169774 TATATCTCTCTGAGTTAACTGATTTAAGATCACAACTCCCAAATAGCTCACGGACCTACATTCCC
126 TATATCTCTCTGAGTTAAATGATTTAAGATCGCAACTCCCAAACAACTCGCAGACCTACGTTCCC
* *
11169839 TA-CTGATGTTTAAA
191 -AGATGATATTTAAA
* ** * * * ** * * *
11169853 GGTTAACTGATTTAATATCGCAACCTATATCTCTTTGAGTTAGCAGAGTTAA-ACTCGCAACTCC
1 AGTTAGTTGATTTAAGATCGCAACCTAAATCTCTCT-AAATAGCTGATTTAAGA-TCTCAACTCC
* * * * *
11169917 AAAATAACTT--GACCTAAGCTTCTAGCTGATGTTTAAAGGTTAGTT
64 CAAATAGCTTCGGAACTACG-TTCCAGCTGATGTTTAAAGGTTAGTT
11169962 AAGTTATGCT
Statistics
Matches: 431, Mismatches: 72, Indels: 42
0.79 0.13 0.08
Matches are distributed among these distances:
204 17 0.04
205 16 0.04
206 123 0.29
207 166 0.39
208 107 0.25
209 2 0.00
ACGTcount: A:0.32, C:0.20, G:0.15, T:0.33
Consensus pattern (204 bp):
AGTTAGTTGATTTAAGATCGCAACCTAAATCTCTCTAAATAGCTGATTTAAGATCTCAACTCCCA
AATAGCTTCGGAACTACGTTCCAGCTGATGTTTAAAGGTTAGTTGATTTAAGATCGCAACTATAT
CTCTCTGAGTTAAATGATTTAAGATCGCAACTCCCAAACAACTCGCAGACCTACGTTCCCAGATG
ATATTTAAA
Found at i:11169919 original size:103 final size:104
Alignment explanation
Indices: 11169233--11169916 Score: 727
Period size: 104 Copynumber: 6.6 Consensus size: 104
11169223 ATCTCTCCGA
* * * * *
11169233 GTTAGTTGATTTAAGATCGCAACCTAAATCTCTCTAAGTT-GACAGATTTAAGATCACAACTCCT
1 GTTAGTTGATTTAAGATCGCAACCTATATCTCTCTGAGTTAG-CTGATTTAAGATCGCAACTCCC
* * * *
11169297 AAACAGCTCGCAAACTTACGTTTCCAACTGATGTTTAAAG
65 AAACAGCTCGCAGACCTACGTTCCCAGCTGATGTTTAAAG
* * * * * *
11169337 ATTAGTTGATTTAAGATCGCAA-CTAAATCTATTTGAGTTAACAT-ATTTAAGATCGCAACTCCT
1 GTTAGTTGATTTAAGATCGCAACCTATATCTCTCTGAGTTAGC-TGATTTAAGATCGCAACTCCC
* * *
11169400 AAACAGCTCGCGGACCTACGTTCCCAGATGATATTTAAAG
65 AAACAGCTCGCAGACCTACGTTCCCAGCTGATGTTTAAAG
* * * *
11169440 GTTAGTTGATTTAATATCGCAACCTAAATCTCTCTGAGTTAGCTGAATTAAGATCTCAACTCCCA
1 GTTAGTTGATTTAAGATCGCAACCTATATCTCTCTGAGTTAGCTGATTTAAGATCGCAACTCCCA
* ** * * * *
11169505 AATAGCTTACGGAACTATGTTCCTAGCTGATGTTTAAAG
66 AACAGCTCGCAGACCTACGTTCCCAGCTGATGTTTAAAG
* * *
11169544 GTTAGCTT-ATTTAATATCGCAACTTATATCTCTCTGAGTTAGTTGATTTAAGATCGCAACTCCC
1 GTTAG-TTGATTTAAGATCGCAACCTATATCTCTCTGAGTTAGCTGATTTAAGATCGCAACTCCC
* * * * *
11169608 AAACAACTCGCAGACCTATGTTCTCAGTTGATGTTTAAAA
65 AAACAGCTCGCAGACCTACGTTCCCAGCTGATGTTTAAAG
* * * ** * *
11169648 GTTATTTGACTTAAGATTGCAACCTATATCTCTCT-AAATAGTTGATTTAAGATTGCAACTCCCA
1 GTTAGTTGATTTAAGATCGCAACCTATATCTCTCTGAGTTAGCTGATTTAAGATCGCAACTCCCA
* * * *
11169712 AATAACTCGCAGACCTACATTCCCAGTTGATGTTT-AAG
66 AACAGCTCGCAGACCTACGTTCCCAGCTGATGTTTAAAG
* *
11169750 GTTAGTTGATTTAAGATCGCAACCTATATCTCTCTGAGTTAACTGATTTAAGATCACAACTCCCA
1 GTTAGTTGATTTAAGATCGCAACCTATATCTCTCTGAGTTAGCTGATTTAAGATCGCAACTCCCA
* * * *
11169815 AATAGCTCACGGACCTACATTCCCTA-CTGATGTTTAAAG
66 AACAGCTCGCAGACCTACGTTCCC-AGCTGATGTTTAAAG
** * * * *
11169854 GTTAACTGATTTAATATCGCAACCTATATCTCTTTGAGTTAGCAGAGTTAA-ACTCGCAACTCC
1 GTTAGTTGATTTAAGATCGCAACCTATATCTCTCTGAGTTAGCTGATTTAAGA-TCGCAACTCC
11169917 AAAATAACTT
Statistics
Matches: 491, Mismatches: 79, Indels: 20
0.83 0.13 0.03
Matches are distributed among these distances:
102 34 0.07
103 199 0.41
104 256 0.52
105 2 0.00
ACGTcount: A:0.32, C:0.21, G:0.15, T:0.33
Consensus pattern (104 bp):
GTTAGTTGATTTAAGATCGCAACCTATATCTCTCTGAGTTAGCTGATTTAAGATCGCAACTCCCA
AACAGCTCGCAGACCTACGTTCCCAGCTGATGTTTAAAG
Found at i:11170225 original size:17 final size:17
Alignment explanation
Indices: 11170203--11170236 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
11170193 ATGTGTAAAG
11170203 GTTAATTGAGCTAAGCT
1 GTTAATTGAGCTAAGCT
*
11170220 GTTAATTGAGTTAAGCT
1 GTTAATTGAGCTAAGCT
11170237 CCCAACCCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.29, C:0.09, G:0.24, T:0.38
Consensus pattern (17 bp):
GTTAATTGAGCTAAGCT
Found at i:11181496 original size:20 final size:21
Alignment explanation
Indices: 11181471--11181512 Score: 61
Period size: 20 Copynumber: 2.0 Consensus size: 21
11181461 TTTTTTTGGA
11181471 ATTTTTGAA-AAAAAA-GAAAT
1 ATTTTT-AAGAAAAAATGAAAT
11181491 ATTTTTAAGAAAAAATGAAAT
1 ATTTTTAAGAAAAAATGAAAT
11181512 A
1 A
11181513 AAGTATAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
19 2 0.10
20 12 0.60
21 6 0.30
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.31
Consensus pattern (21 bp):
ATTTTTAAGAAAAAATGAAAT
Found at i:11181503 original size:21 final size:20
Alignment explanation
Indices: 11181471--11181512 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 20
11181461 TTTTTTTGGA
*
11181471 ATTTTTGAAAAAAAAGAAAT
1 ATTTTTAAAAAAAAAGAAAT
*
11181491 ATTTTTAAGAAAAAATGAAAT
1 ATTTTTAA-AAAAAAAGAAAT
11181512 A
1 A
11181513 AAGTATAATA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.60, C:0.00, G:0.10, T:0.31
Consensus pattern (20 bp):
ATTTTTAAAAAAAAAGAAAT
Found at i:11182055 original size:23 final size:23
Alignment explanation
Indices: 11182000--11182055 Score: 69
Period size: 23 Copynumber: 2.4 Consensus size: 23
11181990 AAACTAGTCC
*
11182000 CTATATGTAATATCCCGAAAATTA
1 CTATA-GTAATACCCCGAAAATTA
11182024 CTACT-GTAATACCCCGAAAATTA
1 CTA-TAGTAATACCCCGAAAATTA
*
11182047 TTATAGTAA
1 CTATAGTAA
11182056 GAAAGTAGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
22 1 0.04
23 23 0.82
24 3 0.11
25 1 0.04
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.32
Consensus pattern (23 bp):
CTATAGTAATACCCCGAAAATTA
Found at i:11190517 original size:16 final size:17
Alignment explanation
Indices: 11190484--11190518 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
11190474 ATCCAGTTCT
*
11190484 TTCTTCTCAATCCTTTC
1 TTCTTCTAAATCCTTTC
11190501 TTCTTCTAAAT-CTTTC
1 TTCTTCTAAATCCTTTC
11190517 TT
1 TT
11190519 TTCAACCCTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 7 0.41
17 10 0.59
ACGTcount: A:0.14, C:0.29, G:0.00, T:0.57
Consensus pattern (17 bp):
TTCTTCTAAATCCTTTC
Found at i:11191377 original size:4 final size:4
Alignment explanation
Indices: 11191368--11191413 Score: 56
Period size: 4 Copynumber: 10.8 Consensus size: 4
11191358 AAAATAAGGA
*
11191368 TAAT TAAT TAAG TAAT TAAT TAAT TAATT TAAT TAAGTT TAAT TAA
1 TAAT TAAT TAAT TAAT TAAT TAAT TAA-T TAAT TAA--T TAAT TAA
11191414 ACATTAAACT
Statistics
Matches: 37, Mismatches: 2, Indels: 6
0.82 0.04 0.13
Matches are distributed among these distances:
4 29 0.78
5 4 0.11
6 4 0.11
ACGTcount: A:0.48, C:0.00, G:0.04, T:0.48
Consensus pattern (4 bp):
TAAT
Found at i:11192771 original size:23 final size:23
Alignment explanation
Indices: 11192745--11192788 Score: 88
Period size: 23 Copynumber: 1.9 Consensus size: 23
11192735 ACTGATTTGC
11192745 AATTCTAAGAATCTAACCCTAGT
1 AATTCTAAGAATCTAACCCTAGT
11192768 AATTCTAAGAATCTAACCCTA
1 AATTCTAAGAATCTAACCCTA
11192789 CCAATATGAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.41, C:0.23, G:0.07, T:0.30
Consensus pattern (23 bp):
AATTCTAAGAATCTAACCCTAGT
Found at i:11193869 original size:19 final size:19
Alignment explanation
Indices: 11193845--11193936 Score: 157
Period size: 19 Copynumber: 4.8 Consensus size: 19
11193835 AATCTTCAGG
11193845 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
11193864 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* **
11193883 AATATATAATCTTAGATAT
1 GATATGCAATCTTAGATAT
11193902 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
11193921 GATATGCAATCTTAGA
1 GATATGCAATCTTAGA
11193937 AGATATGATT
Statistics
Matches: 67, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 67 1.00
ACGTcount: A:0.39, C:0.10, G:0.14, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:11193962 original size:22 final size:22
Alignment explanation
Indices: 11193845--11193959 Score: 94
Period size: 19 Copynumber: 5.7 Consensus size: 22
11193835 AATCTTCAGG
11193845 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
*
11193864 GATATGCAATCTTAG-ATATAAT
1 GATATGCAATCTTAGAAGAT-AT
11193886 -ATAT--AATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
11193902 GATATGCAATCTT---AGATAT
1 GATATGCAATCTTAGAAGATAT
11193921 GATATGCAATCTTAGAAGATAT
1 GATATGCAATCTTAGAAGATAT
* *
11193943 GATTTTGTAATCTTAGA
1 GA-TATGCAATCTTAGA
11193960 GATTTAATTT
Statistics
Matches: 82, Mismatches: 4, Indels: 16
0.80 0.04 0.16
Matches are distributed among these distances:
16 2 0.02
17 7 0.09
19 44 0.54
21 7 0.09
22 10 0.12
23 12 0.15
ACGTcount: A:0.38, C:0.09, G:0.15, T:0.38
Consensus pattern (22 bp):
GATATGCAATCTTAGAAGATAT
Found at i:11199052 original size:14 final size:15
Alignment explanation
Indices: 11199026--11199058 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
11199016 TCCCAAGCTA
*
11199026 GGAAGGACCTTATTT
1 GGAAGGACCTTATCT
11199041 GGAAGG-CCTTATCT
1 GGAAGGACCTTATCT
11199055 GGAA
1 GGAA
11199059 AAGCATCAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 11 0.65
15 6 0.35
ACGTcount: A:0.27, C:0.15, G:0.30, T:0.27
Consensus pattern (15 bp):
GGAAGGACCTTATCT
Found at i:11200689 original size:43 final size:44
Alignment explanation
Indices: 11200632--11200956 Score: 132
Period size: 44 Copynumber: 7.4 Consensus size: 44
11200622 CTGTGGTTAT
* *
11200632 AGTGGAGTACATTGAA-ACCAGTAATTCTACTTCCCTGGGCAAC
1 AGTGGAATAGATTGAAGACCAGTAATTCTACTTCCCTGGGCAAC
* * * ** *
11200675 AGTGGAATAGATTGAAGATTTCAGGT-CTTAT-C-TCCCTAAGCAGC
1 AGTGGAATAGATTGAAGA--CCA-GTAATTCTACTTCCCTGGGCAAC
* ** * * * **
11200719 AGTGGAATAGATCGAAGA-TGGTGGATTTTACCTCCCTGTGGTTAC
1 AGTGGAATAGATTGAAGACCAGT-AATTCTACTTCCCTG-GGCAAC
* * * *
11200764 AGTGGAGTACATTGAAG-CCAGTAATTCTACTTCCCTGGACATC
1 AGTGGAATAGATTGAAGACCAGTAATTCTACTTCCCTGGGCAAC
* * * ** *
11200807 AGTGGAATAGATTGAAGATTTCAGGT-CTTAT-C-TCCCTAAGCAGC
1 AGTGGAATAGATTGAAGA--CCA-GTAATTCTACTTCCCTGGGCAAC
* ** * * * **
11200851 AGTGGAATAGATCGAAGA-TGGTGGATTTTACCTCCCTGTGGTTAC
1 AGTGGAATAGATTGAAGACCAGT-AATTCTACTTCCCTG-GGCAAC
* * * * *
11200896 AGTGGAGTACATTGAAG-CCAGTAATTCTACTTCCCTAGACATC
1 AGTGGAATAGATTGAAGACCAGTAATTCTACTTCCCTGGGCAAC
11200939 AGTGGAATAGATTGAAGA
1 AGTGGAATAGATTGAAGA
11200957 TTTCAGGTCT
Statistics
Matches: 197, Mismatches: 64, Indels: 41
0.65 0.21 0.14
Matches are distributed among these distances:
40 4 0.02
42 6 0.03
43 50 0.25
44 85 0.43
45 38 0.19
46 10 0.05
47 4 0.02
ACGTcount: A:0.29, C:0.18, G:0.24, T:0.29
Consensus pattern (44 bp):
AGTGGAATAGATTGAAGACCAGTAATTCTACTTCCCTGGGCAAC
Found at i:11200697 original size:132 final size:132
Alignment explanation
Indices: 11200460--11201502 Score: 1755
Period size: 132 Copynumber: 7.9 Consensus size: 132
11200450 TTGACAGCGA
* *
11200460 AGCAGATCGAAGATGGCGAATTTTACCTCCATGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * *
11200525 TCTACTTCTCTAGACAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAATAGT
66 TCTACTTCCCTAGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
11200590 GG
131 GG
* *
11200592 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAACCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * *
11200657 TCTACTTCCCTGGGCAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGCAGT
66 TCTACTTCCCTAGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
11200722 GG
131 GG
** *
11200724 AATAGATCGAAGATGGTGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* * *
11200789 TCTACTTCCCTGGACATCAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGCAGT
66 TCTACTTCCCTAGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
11200854 GG
131 GG
** *
11200856 AATAGATCGAAGATGGTGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
*
11200921 TCTACTTCCCTAGACATCAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTAGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
11200986 GG
131 GG
* *
11200988 AGCAGATCGAAAATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
*
11201053 TCTACTTCCCTAGACATCAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTAGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
11201118 GG
131 GG
* *
11201120 AGCAGATCGAAAATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
*
11201185 TCTACTTCCCTAGACATCAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTAGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
11201250 GG
131 GG
* *
11201252 AGCAGATCGAAAATGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
* *
11201317 TCTACTTCCCTGGACAAC-GTGGAATAGATTGAAGATTTCAGGTATTATCTCCCTAAGCAGTAGT
66 TCTACTTCCCTAGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
11201381 GG
131 GG
*
11201383 AACAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
1 AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
** * * *
11201448 TCTACTTTTCTGGACAACAGTGGAATAGATTAAAGATTTCAGATCTTATCTCCCT
66 TCTACTTCCCTAGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCT
11201503 GTGGTTACAG
Statistics
Matches: 875, Mismatches: 35, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
131 125 0.14
132 750 0.86
ACGTcount: A:0.29, C:0.19, G:0.23, T:0.29
Consensus pattern (132 bp):
AGCAGATCGAAGATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
TCTACTTCCCTAGACAACAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGT
GG
Found at i:11201469 original size:43 final size:43
Alignment explanation
Indices: 11201421--11201570 Score: 103
Period size: 43 Copynumber: 3.4 Consensus size: 43
11201411 CCCTGTGGTT
*
11201421 ACAGTGGAGTACATTGAAGCCAGTAATTCTACTTTTCTGGACA
1 ACAGTGGAATACATTGAAGCCAGTAATTCTACTTTTCTGGACA
* * * ***
11201464 ACAGTGGAATAGATT-AA---AG-ATTTCAGATCTTATCTCCCTGTGGTT
1 ACAGTGGAATACATTGAAGCCAGTAATTC-TA-CTT-T-T--CTG-GACA
* *
11201509 ACAGTGGAGTACATTGAAGCCAATAATTCTACTTTTCTGGACA
1 ACAGTGGAATACATTGAAGCCAGTAATTCTACTTTTCTGGACA
* *
11201552 ATAGTGGAATAGATTGAAG
1 ACAGTGGAATACATTGAAG
11201571 ATTTCAGATC
Statistics
Matches: 77, Mismatches: 18, Indels: 24
0.65 0.15 0.20
Matches are distributed among these distances:
38 4 0.05
39 3 0.04
40 3 0.04
41 1 0.01
42 3 0.04
43 30 0.39
44 6 0.08
45 14 0.18
46 3 0.04
47 1 0.01
48 3 0.04
49 2 0.03
50 4 0.05
ACGTcount: A:0.32, C:0.15, G:0.21, T:0.31
Consensus pattern (43 bp):
ACAGTGGAATACATTGAAGCCAGTAATTCTACTTTTCTGGACA
Found at i:11201501 original size:88 final size:88
Alignment explanation
Indices: 11201409--11201588 Score: 333
Period size: 88 Copynumber: 2.0 Consensus size: 88
11201399 CGGATTTTAC
*
11201409 CTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTTTCTGGACAACAGTGGAAT
1 CTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAATTCTACTTTTCTGGACAACAGTGGAAT
11201474 AGATTAAAGATTTCAGATCTTAT
66 AGATTAAAGATTTCAGATCTTAT
*
11201497 CTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAATTCTACTTTTCTGGACAATAGTGGAAT
1 CTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAATTCTACTTTTCTGGACAACAGTGGAAT
*
11201562 AGATTGAAGATTTCAGATCTTAT
66 AGATTAAAGATTTCAGATCTTAT
11201585 CTCC
1 CTCC
11201589 TTAAGCAGTA
Statistics
Matches: 89, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
88 89 1.00
ACGTcount: A:0.29, C:0.18, G:0.20, T:0.33
Consensus pattern (88 bp):
CTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAATTCTACTTTTCTGGACAACAGTGGAAT
AGATTAAAGATTTCAGATCTTAT
Found at i:11201596 original size:351 final size:352
Alignment explanation
Indices: 11201136--11201799 Score: 1125
Period size: 351 Copynumber: 1.9 Consensus size: 352
11201126 TCGAAAATGG
* *
11201136 CAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTAGACA
1 CAGATCTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAATTCTACTTCCCTAGACA
*
11201201 TCAGTGGAATAGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAAT
66 TCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAAT
*
11201266 GGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGA
131 GGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTAATTCCCTGGA
* * *
11201331 CAAC-GTGGAATAGATTGAAGATTTCAGGTATTATCTCCCTAAGCAGTAGTGGAACAGATCGAAG
196 AAACAGTGGAATAGATTGAAGATTTCAGATATTATCTCCCTAAGCAGTAGTGGAACAAATCGAAG
*
11201395 ATGGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTTTCTG
261 ATGGCGGATTTTACCTCCCTGTGGTTACAATGGAGTACATTGAAGCCAGTAATTCTACTTTTCTG
11201460 GACAACAGTGGAATAGATTAAAGATTT
326 GACAACAGTGGAATAGATTAAAGATTT
* ** *
11201487 CAGATCTTATCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAATTCTACTTTTCTGGACA
1 CAGATCTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAATTCTACTTCCCTAGAC-
* *
11201552 AT-AGTGGAATAGATTGAAGATTTCAGATCTTATCTCCTTAAGCAGTAGTGGAGCAGATCGAAGA
65 ATCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAA
* *
11201616 TGGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTAATTCCCTGG
130 TGGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTAATTCCCTGG
* * *
11201681 AAAACAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATTGAA
195 AAAACAGTGGAATAGATTGAAGATTTCAGATATTATCTCCCTAAGCAGTAGTGGAACAAATCGAA
*
11201746 GATGGCGGATTTTACCTCCCTGTGGTTACAATGGAGTACATTGAAGCTAGTAAT
260 GATGGCGGATTTTACCTCCCTGTGGTTACAATGGAGTACATTGAAGCCAGTAAT
11201800 ATATCTCCTT
Statistics
Matches: 291, Mismatches: 20, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
351 183 0.63
352 108 0.37
ACGTcount: A:0.29, C:0.18, G:0.23, T:0.30
Consensus pattern (352 bp):
CAGATCTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAATTCTACTTCCCTAGACA
TCAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAAT
GGCAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTAATTCCCTGGA
AAACAGTGGAATAGATTGAAGATTTCAGATATTATCTCCCTAAGCAGTAGTGGAACAAATCGAAG
ATGGCGGATTTTACCTCCCTGTGGTTACAATGGAGTACATTGAAGCCAGTAATTCTACTTTTCTG
GACAACAGTGGAATAGATTAAAGATTT
Found at i:11201597 original size:220 final size:219
Alignment explanation
Indices: 11201268--11201722 Score: 757
Period size: 220 Copynumber: 2.1 Consensus size: 219
11201258 TCGAAAATGG
* * *
11201268 CAGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACA
1 CAGATCTTATCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAATTCTACTTCCCTGGACA
* *
11201333 ACGTGGAATAGATTGAAGATTTCAGGTATTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGATG
66 AAGTGGAATAGATTGAAGATTTCAGATATTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGATG
* ** *
11201398 GCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTTTCTGGAC
131 GCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTAATTCCCTGGAA
11201463 AACAGTGGAATAGATTAAAGATTT
196 AACAGTGGAATAGATTAAAGATTT
**
11201487 CAGATCTTATCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAATTCTACTTTTCTGGACA
1 CAGATCTTATCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAATTCTACTTCCCTGGACA
* * *
11201552 ATAGTGGAATAGATTGAAGATTTCAGATCTTATCTCCTTAAGCAGTAGTGGAGCAGATCGAAGAT
66 A-AGTGGAATAGATTGAAGATTTCAGATATTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGAT
*
11201617 GGCGGATTTTACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTAATTCCCTGGA
130 GGCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTAATTCCCTGGA
*
11201682 AAACAGTGGAATAGATTGAAGATTT
195 AAACAGTGGAATAGATTAAAGATTT
11201707 CAGATCTTATCTCCCT
1 CAGATCTTATCTCCCT
11201723 AAGCAGTAGT
Statistics
Matches: 219, Mismatches: 16, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
219 61 0.28
220 158 0.72
ACGTcount: A:0.29, C:0.18, G:0.22, T:0.31
Consensus pattern (219 bp):
CAGATCTTATCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAATTCTACTTCCCTGGACA
AAGTGGAATAGATTGAAGATTTCAGATATTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGATG
GCGGATTTTACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTAATTCCCTGGAA
AACAGTGGAATAGATTAAAGATTT
Found at i:11201798 original size:132 final size:132
Alignment explanation
Indices: 11201497--11201799 Score: 498
Period size: 132 Copynumber: 2.3 Consensus size: 132
11201487 CAGATCTTAT
* * ** * *
11201497 CTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAATTCTACTTTTCTGGACAATAGTGGAAT
1 CTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTAATTCCCTGGAAAACAGTGGAAT
* *
11201562 AGATTGAAGATTTCAGATCTTATCTCCTTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTT
66 AGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGATGGCGGATTTT
11201627 AC
131 AC
*
11201629 CTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTAATTCCCTGGAAAACAGTGGAAT
1 CTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTAATTCCCTGGAAAACAGTGGAAT
*
11201694 AGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATTGAAGATGGCGGATTTT
66 AGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGATGGCGGATTTT
11201759 AC
131 AC
* *
11201761 CTCCCTGTGGTTACAATGGAGTACATTGAAGCTAGTAAT
1 CTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAAT
11201800 ATATCTCCTT
Statistics
Matches: 158, Mismatches: 13, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
132 158 1.00
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.30
Consensus pattern (132 bp):
CTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTAATTCCCTGGAAAACAGTGGAAT
AGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATCGAAGATGGCGGATTTT
AC
Found at i:11201868 original size:351 final size:351
Alignment explanation
Indices: 11201146--11201879 Score: 1082
Period size: 351 Copynumber: 2.1 Consensus size: 351
11201136 CAGATTTTAC
* *
11201146 CTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTAGACATCAGTGGAAT
1 CTCCCTGTGATTACAGTGGAGTACATTGAAGCCAATAATTCTACTTCCCTAGACATCAGTGGAAT
*
11201211 AGATTGAAGATTTCAGGTCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATGGCAGATTTT
66 AGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATGGCAGATTTT
* *
11201276 ACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTCCCTGGACAACGTGGAA
131 ACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTAATTCCCTGGAAAACGTGGAA
* *
11201341 TAGATTGAAGATTTCAGGTATTATCTCCCTAAGCAGTAGTGGAACAGATCGAAGATGGCGGATTT
196 TAGATTGAAGATTTCAGATATTATCTCCCTAAGCAGTAGTGGAACAAATCGAAGATGGCGGATTT
* * **
11201406 TACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTACTTTTCTGGACAACAGTGG
261 TACCTCCCTGTGGTTACAATGGAGTACATTGAAGCCAGTAATTATACTCCTCTGGACAACAGTGG
* *
11201471 AATAGATTAAAGATTTCAGATCTTAT
326 AATAGATTAAAGATTTAAGATCATAT
* ** *
11201497 CTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAATTCTACTTTTCTGGACAAT-AGTGGAA
1 CTCCCTGTGATTACAGTGGAGTACATTGAAGCCAATAATTCTACTTCCCTAGAC-ATCAGTGGAA
* * *
11201561 TAGATTGAAGATTTCAGATCTTATCTCCTTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTT
65 TAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATGGCAGATTT
*
11201626 TACCTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTAATTCCCTGGAAAACAGTGG
130 TACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTAATTCCCTGGAAAAC-GTGG
* * *
11201691 AATAGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATTGAAGATGGCGGAT
194 AATAGATTGAAGATTTCAGATATTATCTCCCTAAGCAGTAGTGGAACAAATCGAAGATGGCGGAT
* ** *
11201756 TTTACCTCCCTGTGGTTACAATGGAGTACATTGAAGCTAGTAA-TATATCTCCT-TGGTTAGCAG
259 TTTACCTCCCTGTGGTTACAATGGAGTACATTGAAGCCAGTAATTATA-CTCCTCTGGACAACAG
* *
11201819 TGGAATAGGTTGAAGATTGTAAG-TCATAT
323 TGGAATAGATTAAAGATT-TAAGATCATAT
* ** *
11201848 CTCCTTGAT-ATTGTAGTGGAGTAGATTGAAGC
1 CTCCCTG-TGATTACAGTGGAGTACATTGAAGC
11201880 ACCAATTCTT
Statistics
Matches: 345, Mismatches: 33, Indels: 10
0.89 0.09 0.03
Matches are distributed among these distances:
351 231 0.67
352 114 0.33
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (351 bp):
CTCCCTGTGATTACAGTGGAGTACATTGAAGCCAATAATTCTACTTCCCTAGACATCAGTGGAAT
AGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAAATGGCAGATTTT
ACCTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAGTAATTCTAATTCCCTGGAAAACGTGGAA
TAGATTGAAGATTTCAGATATTATCTCCCTAAGCAGTAGTGGAACAAATCGAAGATGGCGGATTT
TACCTCCCTGTGGTTACAATGGAGTACATTGAAGCCAGTAATTATACTCCTCTGGACAACAGTGG
AATAGATTAAAGATTTAAGATCATAT
Found at i:11201877 original size:45 final size:42
Alignment explanation
Indices: 11201777--11201878 Score: 105
Period size: 42 Copynumber: 2.4 Consensus size: 42
11201767 GTGGTTACAA
* * *
11201777 TGGAGTACATTGAAGCTAGTAATATATCTCCTTGGTTAGCAG
1 TGGAGTAGATTGAAGATAGTAATATATCTCCTTGATTAGCAG
* * * * *
11201819 TGGAATAGGTTGAAGATTGTAAGTCATATCTCCTTGATATTGTAG
1 TGGAGTAGATTGAAGATAGTAA-T-ATATCTCCTTGAT-TAGCAG
11201864 TGGAGTAGATTGAAG
1 TGGAGTAGATTGAAG
11201879 CACCAATTCT
Statistics
Matches: 47, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
42 17 0.36
43 1 0.02
44 12 0.26
45 17 0.36
ACGTcount: A:0.29, C:0.10, G:0.26, T:0.34
Consensus pattern (42 bp):
TGGAGTAGATTGAAGATAGTAATATATCTCCTTGATTAGCAG
Found at i:11201878 original size:132 final size:132
Alignment explanation
Indices: 11201497--11201853 Score: 477
Period size: 132 Copynumber: 2.7 Consensus size: 132
11201487 CAGATCTTAT
* * * * ** * *
11201497 CTCCCTGTGGTTACAGTGGAGTACATTGAAGCCAATAATTCTACTTTTCTGGACAATAGTGGAAT
1 CTCCCTGTGGTTACAATGGAGTACATTGAAGCCAGTAATTATAATTCCCTGGAAAACAGTGGAAT
*
11201562 AGATTGAAGATTTCAGATCTTATCTCCTTAAGCAGTAGTGGAGCAGATCGAAGATGGCGGATTTT
66 AGATTGAAGATTTCAGATCTTATCTCCTTAAGCAGTAGTGGAGCAGATTGAAGATGGCGGATTTT
11201627 AC
131 AC
* * *
11201629 CTCCCTGTGGTTATAGTGGAGTACATTGAAGCCAGTAATTCTAATTCCCTGGAAAACAGTGGAAT
1 CTCCCTGTGGTTACAATGGAGTACATTGAAGCCAGTAATTATAATTCCCTGGAAAACAGTGGAAT
* *
11201694 AGATTGAAGATTTCAGATCTTATCTCCCTAAGCAGTAGTGGAGCAAATTGAAGATGGCGGATTTT
66 AGATTGAAGATTTCAGATCTTATCTCCTTAAGCAGTAGTGGAGCAGATTGAAGATGGCGGATTTT
11201759 AC
131 AC
* * ** *
11201761 CTCCCTGTGGTTACAATGGAGTACATTGAAGCTAGTAA-TAT-ATCTCCTTGGTTAGCAGTGGAA
1 CTCCCTGTGGTTACAATGGAGTACATTGAAGCCAGTAATTATAAT-TCCCTGGAAAACAGTGGAA
* * *
11201824 TAGGTTGAAGATTGTAAG-TCATATCTCCTT
65 TAGATTGAAGATT-TCAGATCTTATCTCCTT
11201854 GATATTGTAG
Statistics
Matches: 201, Mismatches: 22, Indels: 5
0.88 0.10 0.02
Matches are distributed among these distances:
130 2 0.01
131 39 0.19
132 160 0.80
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (132 bp):
CTCCCTGTGGTTACAATGGAGTACATTGAAGCCAGTAATTATAATTCCCTGGAAAACAGTGGAAT
AGATTGAAGATTTCAGATCTTATCTCCTTAAGCAGTAGTGGAGCAGATTGAAGATGGCGGATTTT
AC
Found at i:11205061 original size:19 final size:19
Alignment explanation
Indices: 11205028--11205075 Score: 57
Period size: 19 Copynumber: 2.6 Consensus size: 19
11205018 TAAACAATTC
11205028 AATAATATAAA--TAATAT
1 AATAATATAAATTTAATAT
*
11205045 AA-AATATGAAATTTAATTT
1 AATAATAT-AAATTTAATAT
11205064 AATAATATAAAT
1 AATAATATAAAT
11205076 AGTAGATATA
Statistics
Matches: 26, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
16 5 0.19
17 5 0.19
19 11 0.42
20 5 0.19
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (19 bp):
AATAATATAAATTTAATAT
Found at i:11205580 original size:9 final size:9
Alignment explanation
Indices: 11205566--11205602 Score: 56
Period size: 9 Copynumber: 4.1 Consensus size: 9
11205556 TATAGTTTGA
11205566 TATTCGAAT
1 TATTCGAAT
11205575 TATTCGAAT
1 TATTCGAAT
*
11205584 TATTCGAGT
1 TATTCGAAT
*
11205593 TATTCAAAT
1 TATTCGAAT
11205602 T
1 T
11205603 CGAAAACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
9 25 1.00
ACGTcount: A:0.32, C:0.11, G:0.11, T:0.46
Consensus pattern (9 bp):
TATTCGAAT
Found at i:11218182 original size:17 final size:17
Alignment explanation
Indices: 11218160--11218192 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
11218150 ATGAAAAAAA
11218160 ACTGTTGTTTTT-TTTTC
1 ACTGTT-TTTTTGTTTTC
11218177 ACTGTTTTTTTGTTTT
1 ACTGTTTTTTTGTTTT
11218193 TTTTTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 5 0.33
17 10 0.67
ACGTcount: A:0.06, C:0.09, G:0.12, T:0.73
Consensus pattern (17 bp):
ACTGTTTTTTTGTTTTC
Found at i:11223154 original size:30 final size:30
Alignment explanation
Indices: 11223111--11223168 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
11223101 CACAAGCTGG
* * *
11223111 CACATGGGAGTGTGGCCAGCCTGTGTGGCT
1 CACACGGGAGTGTGCCCAGCCCGTGTGGCT
*
11223141 CACACGGGCGTGTGCCCAGCCCGTGTGG
1 CACACGGGAGTGTGCCCAGCCCGTGTGG
11223169 AAATGCCCAA
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.12, C:0.29, G:0.40, T:0.19
Consensus pattern (30 bp):
CACACGGGAGTGTGCCCAGCCCGTGTGGCT
Found at i:11225075 original size:16 final size:18
Alignment explanation
Indices: 11225056--11225091 Score: 58
Period size: 16 Copynumber: 2.1 Consensus size: 18
11225046 AATTAAAAAG
11225056 AAAGAT-AAATAA-AATA
1 AAAGATAAAATAATAATA
11225072 AAAGATAAAATAATAATA
1 AAAGATAAAATAATAATA
11225090 AA
1 AA
11225092 CTCAATGATA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 6 0.33
17 6 0.33
18 6 0.33
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (18 bp):
AAAGATAAAATAATAATA
Found at i:11225244 original size:9 final size:9
Alignment explanation
Indices: 11225229--11225271 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
11225219 TAGTAAAACA
11225229 AAAATAAAT
1 AAAATAAAT
*
11225238 AATATAAAT
1 AAAATAAAT
11225247 --AATAAAT
1 AAAATAAAT
11225254 AAAATAAAAT
1 AAAAT-AAAT
11225264 AAAATAAA
1 AAAATAAA
11225272 AGGGGTGGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 6
0.78 0.05 0.16
Matches are distributed among these distances:
7 6 0.21
9 14 0.48
10 9 0.31
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (9 bp):
AAAATAAAT
Found at i:11225250 original size:16 final size:16
Alignment explanation
Indices: 11225204--11225261 Score: 64
Period size: 16 Copynumber: 3.7 Consensus size: 16
11225194 GTATAAGAAT
* *
11225204 AATAAAATAAAAAATT
1 AATAAAATAAATAATA
* *
11225220 AGTAAAACAAA-AATA
1 AATAAAATAAATAATA
*
11225235 AATAATATAAATAATA
1 AATAAAATAAATAATA
11225251 AATAAAATAAA
1 AATAAAATAAA
11225262 ATAAAATAAA
Statistics
Matches: 34, Mismatches: 7, Indels: 2
0.79 0.16 0.05
Matches are distributed among these distances:
15 11 0.32
16 23 0.68
ACGTcount: A:0.74, C:0.02, G:0.02, T:0.22
Consensus pattern (16 bp):
AATAAAATAAATAATA
Found at i:11225553 original size:41 final size:41
Alignment explanation
Indices: 11225496--11225577 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
11225486 GTGGGGGGAA
11225496 TTTGGGGAGGAAGAAGACAAACTTAGAAAAACAAAAATGGG
1 TTTGGGGAGGAAGAAGACAAACTTAGAAAAACAAAAATGGG
*
11225537 TTTGGGGAGGAAGAAGACAAACTTAGAAAAACAAAATTGGG
1 TTTGGGGAGGAAGAAGACAAACTTAGAAAAACAAAAATGGG
11225578 GTTAGGGATT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.48, C:0.07, G:0.29, T:0.16
Consensus pattern (41 bp):
TTTGGGGAGGAAGAAGACAAACTTAGAAAAACAAAAATGGG
Found at i:11228487 original size:44 final size:44
Alignment explanation
Indices: 11228352--11228501 Score: 173
Period size: 43 Copynumber: 3.5 Consensus size: 44
11228342 CAACGCCATA
* * * *
11228352 TCCCAGATATGGTCTTACATGT-TATCACATATCGATGCCACTG
1 TCCCAGACATGGTCTTACACGTAAATCACATATCGATGCCAATG
* * *
11228395 TCCCAGACA-GAGTCTTACATG-AAATCATATA-CGATGCCGATG
1 TCCCAGACATG-GTCTTACACGTAAATCACATATCGATGCCAATG
*
11228437 TCCCAGACATGGTCTTACACGTAAATCACAAATCGATGCCAATG
1 TCCCAGACATGGTCTTACACGTAAATCACATATCGATGCCAATG
**
11228481 TCCCAGATGTGGTCTTACACG
1 TCCCAGACATGGTCTTACACG
11228502 ATAACACATC
Statistics
Matches: 91, Mismatches: 11, Indels: 9
0.82 0.10 0.08
Matches are distributed among these distances:
42 28 0.31
43 34 0.37
44 29 0.32
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (44 bp):
TCCCAGACATGGTCTTACACGTAAATCACATATCGATGCCAATG
Found at i:11237214 original size:22 final size:21
Alignment explanation
Indices: 11237189--11237260 Score: 56
Period size: 22 Copynumber: 3.3 Consensus size: 21
11237179 GTAGGCATCA
11237189 AAGTGCTGATTAGTAGGCACTG
1 AAGTGCTGA-TAGTAGGCACTG
*
11237211 AAGTGCTAGATAGTAAGCA-TCG
1 AAGTGCT-GATAGTAGGCACT-G
* * *
11237233 AAATGCTAAACAGTAGGCACTG
1 AAGTGCT-GATAGTAGGCACTG
*
11237255 TAGTGC
1 AAGTGC
11237261 GAATCAGTGG
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
21 1 0.03
22 36 0.90
23 3 0.08
ACGTcount: A:0.33, C:0.15, G:0.28, T:0.24
Consensus pattern (21 bp):
AAGTGCTGATAGTAGGCACTG
Found at i:11243759 original size:26 final size:26
Alignment explanation
Indices: 11243730--11243787 Score: 64
Period size: 26 Copynumber: 2.2 Consensus size: 26
11243720 AAGGTTTTTC
*
11243730 AATGACCGTAATGCCCCT-GAAGGGTA
1 AATGACCATAATGCCCCTCG-AGGGTA
* **
11243756 AATGACTATTTTGCCCCTCGAGGGTA
1 AATGACCATAATGCCCCTCGAGGGTA
11243782 AATGAC
1 AATGAC
11243788 TGATTTGTGC
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
26 26 0.96
27 1 0.04
ACGTcount: A:0.29, C:0.22, G:0.24, T:0.24
Consensus pattern (26 bp):
AATGACCATAATGCCCCTCGAGGGTA
Found at i:11243788 original size:26 final size:27
Alignment explanation
Indices: 11243741--11243793 Score: 83
Period size: 26 Copynumber: 2.0 Consensus size: 27
11243731 ATGACCGTAA
11243741 TGCCCCTGAAGGGTAAATGACT-ATTT
1 TGCCCCTGAAGGGTAAATGACTGATTT
11243767 TGCCCCTCG-AGGGTAAATGACTGATTT
1 TGCCCCT-GAAGGGTAAATGACTGATTT
11243794 GTGCTATGGT
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
26 20 0.80
27 5 0.20
ACGTcount: A:0.25, C:0.21, G:0.25, T:0.30
Consensus pattern (27 bp):
TGCCCCTGAAGGGTAAATGACTGATTT
Found at i:11257249 original size:31 final size:31
Alignment explanation
Indices: 11257196--11257271 Score: 118
Period size: 31 Copynumber: 2.5 Consensus size: 31
11257186 AAATGTTAAG
*
11257196 TAAACAAATA-TTTTTAATAGATAAAAAATCT
1 TAAA-AAATATTTTTTAACAGATAAAAAATCT
*
11257227 TAAAAAATATTTTTTAACAGATAACAAATCT
1 TAAAAAATATTTTTTAACAGATAAAAAATCT
11257258 TAAAAAATATTTTT
1 TAAAAAATATTTTT
11257272 CTAGGTTTAT
Statistics
Matches: 42, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
30 5 0.12
31 37 0.88
ACGTcount: A:0.53, C:0.07, G:0.03, T:0.38
Consensus pattern (31 bp):
TAAAAAATATTTTTTAACAGATAAAAAATCT
Found at i:11262471 original size:55 final size:55
Alignment explanation
Indices: 11262387--11262496 Score: 184
Period size: 55 Copynumber: 2.0 Consensus size: 55
11262377 GTATCCATTG
* * *
11262387 GATGATAGATCATCAATTTTAATTTGAATAGTGCTTATGAATAATTAATTTGCAA
1 GATGATAAATCATCAATTTTAATTTGAATAGTACTCATGAATAATTAATTTGCAA
*
11262442 GATGATAAATCATCACTTTTAATTTGAATAGTACTCATGAATAATTAATTTGCAA
1 GATGATAAATCATCAATTTTAATTTGAATAGTACTCATGAATAATTAATTTGCAA
11262497 TCTATAATTT
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 51 1.00
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.39
Consensus pattern (55 bp):
GATGATAAATCATCAATTTTAATTTGAATAGTACTCATGAATAATTAATTTGCAA
Found at i:11262493 original size:26 final size:26
Alignment explanation
Indices: 11262405--11262493 Score: 72
Period size: 26 Copynumber: 3.3 Consensus size: 26
11262395 ATCATCAATT
* *
11262405 TTAATTTGAATAGTGCTTATGAATAA
1 TTAATTTGAATAGTACTCATGAATAA
* * * * *
11262431 TTAATTTGCAAGATGATAAATCATCACT-T
1 TTAATTTG-AATA-G-T-ACTCATGAATAA
11262460 TTAATTTGAATAGTACTCATGAATAA
1 TTAATTTGAATAGTACTCATGAATAA
11262486 TTAATTTG
1 TTAATTTG
11262494 CAATCTATAA
Statistics
Matches: 46, Mismatches: 12, Indels: 10
0.68 0.18 0.15
Matches are distributed among these distances:
25 7 0.15
26 17 0.37
27 4 0.09
28 4 0.09
29 9 0.20
30 5 0.11
ACGTcount: A:0.38, C:0.08, G:0.12, T:0.42
Consensus pattern (26 bp):
TTAATTTGAATAGTACTCATGAATAA
Found at i:11265819 original size:55 final size:55
Alignment explanation
Indices: 11265735--11265841 Score: 178
Period size: 55 Copynumber: 1.9 Consensus size: 55
11265725 GTATCCATTG
* * *
11265735 GATGATAAATTATCACTTTTAATTTGAATAGTACTTATGAATAATTAATTTGCAA
1 GATGATAAATCATCACTTTTAATTTGAATAGGACTCATGAATAATTAATTTGCAA
*
11265790 GATGATAAATCATCACTTTTAATTTGAATAGGGCTCATGAATAATTAATTTG
1 GATGATAAATCATCACTTTTAATTTGAATAGGACTCATGAATAATTAATTTG
11265842 TAATCTATAA
Statistics
Matches: 48, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
55 48 1.00
ACGTcount: A:0.38, C:0.08, G:0.13, T:0.40
Consensus pattern (55 bp):
GATGATAAATCATCACTTTTAATTTGAATAGGACTCATGAATAATTAATTTGCAA
Found at i:11266166 original size:19 final size:20
Alignment explanation
Indices: 11266142--11266182 Score: 66
Period size: 19 Copynumber: 2.0 Consensus size: 20
11266132 AAAACACAAC
11266142 TTTAAAACAT-ACATTTCAA
1 TTTAAAACATAACATTTCAA
11266161 TTTAAAACATAAACATTTCAA
1 TTTAAAACAT-AACATTTCAA
11266182 T
1 T
11266183 CACCATACAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 10 0.50
21 10 0.50
ACGTcount: A:0.49, C:0.15, G:0.00, T:0.37
Consensus pattern (20 bp):
TTTAAAACATAACATTTCAA
Found at i:11266535 original size:17 final size:17
Alignment explanation
Indices: 11266513--11266553 Score: 82
Period size: 17 Copynumber: 2.4 Consensus size: 17
11266503 CCTACAGGGG
11266513 ACACACGGCCGTGTGTC
1 ACACACGGCCGTGTGTC
11266530 ACACACGGCCGTGTGTC
1 ACACACGGCCGTGTGTC
11266547 ACACACG
1 ACACACG
11266554 ACTGAGACAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 24 1.00
ACGTcount: A:0.22, C:0.37, G:0.27, T:0.15
Consensus pattern (17 bp):
ACACACGGCCGTGTGTC
Found at i:11267379 original size:38 final size:38
Alignment explanation
Indices: 11267273--11267379 Score: 142
Period size: 38 Copynumber: 2.8 Consensus size: 38
11267263 ACATCGGAAC
* * * * *
11267273 AAGCCTACTAGGCACAGAGCCTGAATAACACCGGCACA
1 AAGCCTGCTAGGCATAGAGCCCGAATAACATCGACACA
*
11267311 AAACCTGCTAGGCATAGAGCCCGAATAACATCGACACA
1 AAGCCTGCTAGGCATAGAGCCCGAATAACATCGACACA
* *
11267349 AAGCCTGCTAGGTATAGAGCCGGAATAACAT
1 AAGCCTGCTAGGCATAGAGCCCGAATAACAT
11267380 TATGCTTCTA
Statistics
Matches: 60, Mismatches: 9, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
38 60 1.00
ACGTcount: A:0.37, C:0.27, G:0.21, T:0.14
Consensus pattern (38 bp):
AAGCCTGCTAGGCATAGAGCCCGAATAACATCGACACA
Found at i:11272187 original size:50 final size:50
Alignment explanation
Indices: 11272065--11272257 Score: 260
Period size: 50 Copynumber: 3.8 Consensus size: 50
11272055 AATAATAACA
* * ** * *
11272065 TGCCAAAGCCATGTCCCAGACGTGGTCTTACATGGGATGTTCTCATATCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCATCTCGG
* * ** *
11272116 TGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTTATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
11272166 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
*
11272216 TGCCAACGCCATGTCCCAGACATGGTCTTACATGAGACCTCT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
11272258 TTACCCAAAT
Statistics
Matches: 126, Mismatches: 16, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
50 94 0.75
51 32 0.25
ACGTcount: A:0.21, C:0.31, G:0.22, T:0.25
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCGG
Found at i:11274155 original size:38 final size:38
Alignment explanation
Indices: 11274104--11274253 Score: 212
Period size: 38 Copynumber: 4.0 Consensus size: 38
11274094 TTCAATATAT
* **
11274104 CGGCAC-AAGCCTACTAGGCACAAAGCATGAATAACAC
1 CGGCACAAAGCCTACTAGGCACAGAGCCCGAATAACAC
* *
11274141 CGGCACAAAGCCTACTAGGCACAGAGCCTGAATAACAT
1 CGGCACAAAGCCTACTAGGCACAGAGCCCGAATAACAC
* *
11274179 CGGCACAAAGCCTGCTAGGCACAGAGCCCAAATAACAC
1 CGGCACAAAGCCTACTAGGCACAGAGCCCGAATAACAC
* *
11274217 TGGCACAAAGCCTGCTAGGCACAGAGCCCGAATAACA
1 CGGCACAAAGCCTACTAGGCACAGAGCCCGAATAACA
11274254 TTATGCTTCT
Statistics
Matches: 103, Mismatches: 9, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
37 6 0.06
38 97 0.94
ACGTcount: A:0.37, C:0.31, G:0.21, T:0.11
Consensus pattern (38 bp):
CGGCACAAAGCCTACTAGGCACAGAGCCCGAATAACAC
Found at i:11274190 original size:22 final size:22
Alignment explanation
Indices: 11274120--11274192 Score: 68
Period size: 22 Copynumber: 3.6 Consensus size: 22
11274110 AAGCCTACTA
* *
11274120 GGCACAAAGCATGAATAACACC
1 GGCACAAAGCCTGAATAACATC
*
11274142 GGCACAAAGCC----T-AC-TA
1 GGCACAAAGCCTGAATAACATC
*
11274158 GGCACAGAGCCTGAATAACATC
1 GGCACAAAGCCTGAATAACATC
11274180 GGCACAAAGCCTG
1 GGCACAAAGCCTG
11274193 CTAGGCACAG
Statistics
Matches: 39, Mismatches: 6, Indels: 12
0.68 0.11 0.21
Matches are distributed among these distances:
16 10 0.26
17 2 0.05
18 1 0.03
20 1 0.03
21 2 0.05
22 23 0.59
ACGTcount: A:0.38, C:0.29, G:0.22, T:0.11
Consensus pattern (22 bp):
GGCACAAAGCCTGAATAACATC
Found at i:11275992 original size:63 final size:63
Alignment explanation
Indices: 11275891--11276013 Score: 174
Period size: 63 Copynumber: 2.0 Consensus size: 63
11275881 GGATTTGATA
* *
11275891 GGACTTATGCAAATTCATAGTGTGGATCGAAAGAAGTATGTCATTGTGTGTGCGTGCGTGTGT
1 GGACTTATGCAAATTCAGAGTGTGGATCGAAAAAAGTATGTCATTGTGTGTGCGTGCGTGTGT
* * * * * *
11275954 GGACTTATGCAAATTGAGAGTTTGGGTTGAAAAAAGTATGTCTTTGTGTGTGTGTGCGTG
1 GGACTTATGCAAATTCAGAGTGTGGATCGAAAAAAGTATGTCATTGTGTGTGCGTGCGTG
11276014 CGTGTGATTA
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
63 52 1.00
ACGTcount: A:0.24, C:0.09, G:0.33, T:0.35
Consensus pattern (63 bp):
GGACTTATGCAAATTCAGAGTGTGGATCGAAAAAAGTATGTCATTGTGTGTGCGTGCGTGTGT
Found at i:11278069 original size:112 final size:111
Alignment explanation
Indices: 11277481--11278300 Score: 1373
Period size: 110 Copynumber: 7.4 Consensus size: 111
11277471 GAAATTCAAG
* * * * * *
11277481 AGGATATTTGGCTATTCGGTTAAATGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTCTCTC
1 AGGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
11277546 GAATTTCCCAAATGCAAAACATTGCCTTAATTT--AAATTTTTTAAA
66 GAATTTCCCAAATGCAAAACATTGCCTT-ATTTGAAAATTTTTTAAA
* *
11277591 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCTAGCACCTTAGGGCACGTTTTCTC
1 AGGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
* *
11277656 GAATTTCCCAAACGCAATACATTGCCTTATTTGAAAA-TTTTTAAA
66 GAATTTCCCAAATGCAAAACATTGCCTTATTTGAAAATTTTTTAAA
* *
11277701 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCTAGCACCTTAGGGCACGTTTTCTC
1 AGGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
* *
11277766 GAATTTCCCAAACGCAATACATTGCCTTATTTGAAAA-TTTTTAAA
66 GAATTTCCCAAATGCAAAACATTGCCTTATTTGAAAATTTTTTAAA
* * * *
11277811 AGGATATTTAGCTATTCGGTTAAATGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
1 AGGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
* * *
11277876 GAATTT-TCAAACGCAAAACATTGCCTTATTTTAAAA-TTTTTAAA
66 GAATTTCCCAAATGCAAAACATTGCCTTATTTGAAAATTTTTTAAA
11277920 AGGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
1 AGGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
11277985 GAATTTCCCAAATGCAAAACATTGCCTTATTTCGAAAATTTTTTAAA
66 GAATTTCCCAAATGCAAAACATTGCCTTATTT-GAAAATTTTTTAAA
11278032 AGGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
1 AGGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
11278097 GAATTTCCCAAATGCAAAACATTGCCTTATTTCGAAAATTTTTTAAA
66 GAATTTCCCAAATGCAAAACATTGCCTTATTT-GAAAATTTTTTAAA
11278144 AGGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
1 AGGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
11278209 GAATTTCCCAAATGCAAAACATTGCCTTATTTCGAAAATTTTTTAAA
66 GAATTTCCCAAATGCAAAACATTGCCTTATTT-GAAAATTTTTTAAA
11278256 AGGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGC
1 AGGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGC
11278301 TGTAATGCGC
Statistics
Matches: 683, Mismatches: 22, Indels: 8
0.96 0.03 0.01
Matches are distributed among these distances:
109 106 0.16
110 293 0.43
111 7 0.01
112 277 0.41
ACGTcount: A:0.33, C:0.20, G:0.16, T:0.31
Consensus pattern (111 bp):
AGGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
GAATTTCCCAAATGCAAAACATTGCCTTATTTGAAAATTTTTTAAA
Found at i:11279177 original size:22 final size:22
Alignment explanation
Indices: 11279152--11279193 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
11279142 TTTAGGCTAG
11279152 TTGGGTCTGGTTCTGTTTGGAT
1 TTGGGTCTGGTTCTGTTTGGAT
* *
11279174 TTGGGTTTGGTTGTGTTTGG
1 TTGGGTCTGGTTCTGTTTGG
11279194 GTAGCTGAGG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.02, C:0.05, G:0.40, T:0.52
Consensus pattern (22 bp):
TTGGGTCTGGTTCTGTTTGGAT
Found at i:11279721 original size:132 final size:132
Alignment explanation
Indices: 11279508--11279802 Score: 414
Period size: 132 Copynumber: 2.2 Consensus size: 132
11279498 CCCTAGTATC
* * * * * * * *
11279508 TTGGGAAGGTAAAATTCACCGTCTTTGATCTGTTCCACTACTGTTTAGGGATACAGAATCTACAG
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGATACAAAATCTACAA
* * * * * * *
11279573 TCATTGATCTATTCCACTACTGCTTAGGGTGATAGGACTAATGGTTTAAATCTGCTTCTCCATTG
66 TCATTAACCTACTCCACTACTGCTTAGAGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTA
11279638 TA
131 TA
*
11279640 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGG-TGACAAAATCTGCA
1 TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGAT-ACAAAATCTACA
11279704 ATC-TTCAACCTACTCCACTACTGCTTAGAGTGATAGGACTAATGGCTTAAATCTGCTTCTCCAC
65 ATCATT-AACCTACTCCACTACTGCTTAGAGTGATAGGACTAATGGCTTAAATCTGCTTCTCCAC
11279768 TATA
129 TATA
11279772 TTGGGAAGATAAGATTCACCATCTTCGATCT
1 TTGGGAAGATAAGATTCACCATCTTCGATCT
11279803 ACTCTGCTGC
Statistics
Matches: 145, Mismatches: 16, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
131 3 0.02
132 142 0.98
ACGTcount: A:0.27, C:0.22, G:0.18, T:0.33
Consensus pattern (132 bp):
TTGGGAAGATAAGATTCACCATCTTCGATCTGCTCCACTACTGCTTAGGGATACAAAATCTACAA
TCATTAACCTACTCCACTACTGCTTAGAGTGATAGGACTAATGGCTTAAATCTGCTTCTCCACTA
TA
Found at i:11279842 original size:46 final size:45
Alignment explanation
Indices: 11279792--11280019 Score: 348
Period size: 46 Copynumber: 5.0 Consensus size: 45
11279782 AAGATTCACC
* * *
11279792 ATCTTCGATCTACTCTGCTGCCAAATACAGAAAGACAAGATCTGTT
1 ATCTTCGATCT-CTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
*
11279838 ATCTTCGATCTCTTTCGCTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCTC-TCCGCTGCCAAATACAGGAAGACAAGATCTGCT
* *
11279884 ATCTTCGATCTCTTCCGTTGCCAAATATAGGAAGACAAGATCTGCT
1 ATCTTCGATCTC-TCCGCTGCCAAATACAGGAAGACAAGATCTGCT
11279930 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
1 ATCTTCGATCT-CTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
*
11279976 ATCTTCGATCTCCTCCGCTGCCAAATACAGGAAGATAAGATCTG
1 ATCTTCGATCT-CTCCGCTGCCAAATACAGGAAGACAAGATCTG
11280020 TAACTTCATT
Statistics
Matches: 170, Mismatches: 10, Indels: 4
0.92 0.05 0.02
Matches are distributed among these distances:
45 1 0.01
46 168 0.99
47 1 0.01
ACGTcount: A:0.29, C:0.26, G:0.17, T:0.27
Consensus pattern (45 bp):
ATCTTCGATCTCTCCGCTGCCAAATACAGGAAGACAAGATCTGCT
Found at i:11282090 original size:10 final size:10
Alignment explanation
Indices: 11282065--11282102 Score: 58
Period size: 10 Copynumber: 3.7 Consensus size: 10
11282055 TGACTTCTCC
11282065 TTTTTCTTTT
1 TTTTTCTTTT
11282075 TCTTTTCTTTT
1 T-TTTTCTTTT
*
11282086 TTTTTCTTTC
1 TTTTTCTTTT
11282096 TTTTTCT
1 TTTTTCT
11282103 CTTATGATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 16 0.62
11 10 0.38
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (10 bp):
TTTTTCTTTT
Found at i:11282113 original size:25 final size:25
Alignment explanation
Indices: 11282067--11282115 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 25
11282057 ACTTCTCCTT
* * **
11282067 TTTCTTTTTCTTTTCTTTTTTTTTC
1 TTTCTTTTTCTCTTATGATTTTTTC
11282092 TTTCTTTTTCTCTTATGATTTTTT
1 TTTCTTTTTCTCTTATGATTTTTT
11282116 AATTTTTTGT
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.04, C:0.14, G:0.02, T:0.80
Consensus pattern (25 bp):
TTTCTTTTTCTCTTATGATTTTTTC
Found at i:11282158 original size:10 final size:10
Alignment explanation
Indices: 11282125--11282150 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
11282115 TAATTTTTTG
11282125 TTTTTTATTA
1 TTTTTTATTA
11282135 TTTTTTATTA
1 TTTTTTATTA
11282145 TTTTTT
1 TTTTTT
11282151 GATTTTTTGA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.15, C:0.00, G:0.00, T:0.85
Consensus pattern (10 bp):
TTTTTTATTA
Found at i:11286394 original size:110 final size:110
Alignment explanation
Indices: 11286161--11286460 Score: 496
Period size: 110 Copynumber: 2.7 Consensus size: 110
11286151 GAAATTCAGG
* * * *
11286161 AGGATATTTGGCTATTCGGTTAAATGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
1 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
*
11286226 GAATTT--CAAACGCAAAACATTGCCTTATTTTAAAATTTTTAAA
66 GAATTTCCCAAACGCAAAACATTGCCTTAATTTAAAATTTTTAAA
* *
11286269 AGGATATTTAGCCATTTGGTTGAACGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTCTCTC
1 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
* *
11286334 GAATTTCCCAAATGCAAAACATTGCCTTAATTTAAATTTTTTAAA
66 GAATTTCCCAAACGCAAAACATTGCCTTAATTTAAAATTTTTAAA
*
11286379 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCTAGCACCTTAGGGCACGTTTTCTC
1 AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
11286444 GAATTTCCCAAACGCAA
66 GAATTTCCCAAACGCAA
11286461 NNNNNNNNNN
Statistics
Matches: 177, Mismatches: 13, Indels: 2
0.92 0.07 0.01
Matches are distributed among these distances:
108 65 0.37
110 112 0.63
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (110 bp):
AGGATATTTAGCCATTTGGTTGAATGAGAAAAATCGACACCCAGCACCTTAGGGCACGTTTTCTC
GAATTTCCCAAACGCAAAACATTGCCTTAATTTAAAATTTTTAAA
Found at i:11287890 original size:22 final size:22
Alignment explanation
Indices: 11287865--11287906 Score: 66
Period size: 22 Copynumber: 1.9 Consensus size: 22
11287855 TTTAGGCTAG
11287865 TTGGGTCTGGTTCTGTTTGGAT
1 TTGGGTCTGGTTCTGTTTGGAT
* *
11287887 TTGGGTTTGGTTGTGTTTGG
1 TTGGGTCTGGTTCTGTTTGG
11287907 GTAGCTGAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.02, C:0.05, G:0.40, T:0.52
Consensus pattern (22 bp):
TTGGGTCTGGTTCTGTTTGGAT
Found at i:11297512 original size:28 final size:27
Alignment explanation
Indices: 11297468--11297523 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 27
11297458 TTGAAACTTG
11297468 ATTTTTTTTGTGTTATATTTATAATTTT
1 ATTTTTTTTGTGTTATATTTAT-ATTTT
*
11297496 ATTTTTTTTGT-TGTATATTTCTATTTT
1 ATTTTTTTTGTGT-TATATTTATATTTT
11297523 A
1 A
11297524 CATACGAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
27 7 0.27
28 19 0.73
ACGTcount: A:0.20, C:0.02, G:0.07, T:0.71
Consensus pattern (27 bp):
ATTTTTTTTGTGTTATATTTATATTTT
Found at i:11310663 original size:131 final size:132
Alignment explanation
Indices: 11310398--11310867 Score: 760
Period size: 131 Copynumber: 3.6 Consensus size: 132
11310388 GGTAACCAGT
11310398 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAG
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAG
* * * * * *
11310463 TGGGAAACAGATTTGAGCCACCAAGCCTTGTCTCCCTGAGCAACAGTGGAGAAGGTTGAAAATTG
66 TGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTA
11310528 TA
131 TA
* *
11310530 GATCTTATCTCCTTAAGCAGTAGTGGAGCAGATCGAAGACGGTGAATCTTATCTTTCCAAGA-AG
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAG
11310594 TGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTA
66 TGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTA
11310659 TA
131 TA
*
11310661 GATCTTATCTCCCTAAGTAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAG
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAG
* *
11310726 TGGGAAGCAGATTTAAGCCACCAAGCCTTATCTCCCTGAGCAGCAGCGGAGAAGGATGAAGA-T-
66 TGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTA
11310789 T-
131 TA
*
11310790 -A---TATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCG-ATCTTATCTTTCCAAGATAA
1 GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAG
*
11310850 TGGGAAGCAGATTAAAGC
66 TGGGAAGCAGATTTAAGC
11310868 TGACAATCCT
Statistics
Matches: 321, Mismatches: 16, Indels: 10
0.93 0.05 0.03
Matches are distributed among these distances:
124 36 0.11
125 38 0.12
128 1 0.00
130 1 0.00
131 123 0.38
132 122 0.38
ACGTcount: A:0.31, C:0.20, G:0.25, T:0.24
Consensus pattern (132 bp):
GATCTTATCTCCCTAAGCAGTAGTGGAGCAGATCGAAGACGGCGAATCTTATCTTTCCAAGATAG
TGGGAAGCAGATTTAAGCCACCAAGCCTTGTCTCCCTGAGCAGCAGCGGAGAAGGTTGAAGATTA
TA
Found at i:11311497 original size:26 final size:27
Alignment explanation
Indices: 11311449--11311500 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
11311439 AAACTTGTCT
*
11311449 TTTTTTGTGTTATATTTATTATTTTAA
1 TTTTTTGTGTTATATTTACTATTTTAA
11311476 TTTTTTGT-TGTATATTT-CTATTTTA
1 TTTTTTGTGT-TATATTTACTATTTTA
11311501 CATACGAATA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 8 0.35
27 15 0.65
ACGTcount: A:0.19, C:0.02, G:0.08, T:0.71
Consensus pattern (27 bp):
TTTTTTGTGTTATATTTACTATTTTAA
Found at i:11312366 original size:18 final size:18
Alignment explanation
Indices: 11312320--11312360 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
11312310 ATATATATAT
* * *
11312320 TTTACGAATATTTTCTTT
1 TTTATGAATATTTTCATA
11312338 TTTATGAATATTTTCATA
1 TTTATGAATATTTTCATA
11312356 TTTAT
1 TTTAT
11312361 ATATATATTT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.27, C:0.07, G:0.05, T:0.61
Consensus pattern (18 bp):
TTTATGAATATTTTCATA
Found at i:11319333 original size:13 final size:13
Alignment explanation
Indices: 11319315--11319340 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11319305 CGCATGATAA
11319315 AAAATGAATTTAC
1 AAAATGAATTTAC
11319328 AAAATGAATTTAC
1 AAAATGAATTTAC
11319341 CCCTATTGTT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.54, C:0.08, G:0.08, T:0.31
Consensus pattern (13 bp):
AAAATGAATTTAC
Found at i:11321504 original size:23 final size:24
Alignment explanation
Indices: 11321464--11321519 Score: 71
Period size: 23 Copynumber: 2.3 Consensus size: 24
11321454 ATTAAATATT
11321464 TTAAATTCAAATTTAAATTAA-TTA
1 TTAAATT-AAATTTAAATTAATTTA
*
11321488 -TAAATTAACTTTAAAATTAATTTA
1 TTAAATTAAATTT-AAATTAATTTA
11321512 TTAAATTA
1 TTAAATTA
11321520 TTTTTATGTA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 5 0.18
23 13 0.46
24 3 0.11
25 7 0.25
ACGTcount: A:0.50, C:0.04, G:0.00, T:0.46
Consensus pattern (24 bp):
TTAAATTAAATTTAAATTAATTTA
Found at i:11321522 original size:12 final size:12
Alignment explanation
Indices: 11321477--11321519 Score: 54
Period size: 11 Copynumber: 3.6 Consensus size: 12
11321467 AATTCAAATT
11321477 TAAATTAA-TTA
1 TAAATTAATTTA
11321488 TAAATTAACTTTA
1 TAAATTAA-TTTA
11321501 -AAATTAATTTA
1 TAAATTAATTTA
11321512 TTAAATTA
1 -TAAATTA
11321520 TTTTTATGTA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
11 12 0.43
12 7 0.25
13 9 0.32
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (12 bp):
TAAATTAATTTA
Found at i:11323705 original size:40 final size:38
Alignment explanation
Indices: 11323661--11323747 Score: 95
Period size: 40 Copynumber: 2.2 Consensus size: 38
11323651 GAAAATATTG
*
11323661 AAAAGGA-TATGTCCAAAAAGGATATCAAATGAAAAGGTTA
1 AAAAGGACTAT-T-CAAAAAGGATATC-AATGAAAAGGTCA
* *
11323701 AAAAGGACGTTATTCGAAAAGGATATCAATGAAAAGGTCG
1 AAAAGGAC--TATTCAAAAAGGATATCAATGAAAAGGTCA
11323741 AAAAGGA
1 AAAAGGA
11323748 AATCAATGAA
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
40 25 0.61
41 12 0.29
42 1 0.02
43 3 0.07
ACGTcount: A:0.51, C:0.08, G:0.23, T:0.18
Consensus pattern (38 bp):
AAAAGGACTATTCAAAAAGGATATCAATGAAAAGGTCA
Found at i:11323744 original size:24 final size:24
Alignment explanation
Indices: 11323714--11323786 Score: 103
Period size: 24 Copynumber: 3.0 Consensus size: 24
11323704 AGGACGTTAT
11323714 TCGAAAAGGATATCAATGAAAAGG
1 TCGAAAAGGATATCAATGAAAAGG
* *
11323738 TCGAAAAGGAAATCAATGAAAATG
1 TCGAAAAGGATATCAATGAAAAGG
*
11323762 TCAAAAAGGATAGT-AATGAAAAGG
1 TCGAAAAGGATA-TCAATGAAAAGG
11323786 T
1 T
11323787 TGGTATTTCA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
24 42 0.98
25 1 0.02
ACGTcount: A:0.52, C:0.07, G:0.23, T:0.18
Consensus pattern (24 bp):
TCGAAAAGGATATCAATGAAAAGG
Found at i:11332926 original size:26 final size:26
Alignment explanation
Indices: 11332892--11332953 Score: 99
Period size: 26 Copynumber: 2.4 Consensus size: 26
11332882 TTACCCCAAC
*
11332892 AAAATTTTGATGATTTT-ACCCTTGGT
1 AAAATTTTGACGATTTTGA-CCTTGGT
11332918 AAAATTTTGACGATTTTGACCTTGGT
1 AAAATTTTGACGATTTTGACCTTGGT
11332944 AAAATTTTGA
1 AAAATTTTGA
11332954 AAAAATATGT
Statistics
Matches: 34, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
26 33 0.97
27 1 0.03
ACGTcount: A:0.31, C:0.10, G:0.16, T:0.44
Consensus pattern (26 bp):
AAAATTTTGACGATTTTGACCTTGGT
Found at i:11335915 original size:21 final size:21
Alignment explanation
Indices: 11335889--11335930 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
11335879 TCAAATTGAT
*
11335889 GGCAATGTGAATCCATCAAAA
1 GGCAATATGAATCCATCAAAA
* *
11335910 GGCAATATGGATCCGTCAAAA
1 GGCAATATGAATCCATCAAAA
11335931 TTTAAGCGAC
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.19, G:0.21, T:0.19
Consensus pattern (21 bp):
GGCAATATGAATCCATCAAAA
Found at i:11346794 original size:20 final size:18
Alignment explanation
Indices: 11346770--11346821 Score: 63
Period size: 20 Copynumber: 2.8 Consensus size: 18
11346760 ATAGTATTTT
11346770 TATTAATTTAATATTAAA
1 TATTAATTTAATATTAAA
11346788 GTGATT-ATCTTAATATTAAA
1 -T-ATTAAT-TTAATATTAAA
11346808 T-TTAATTTAATATT
1 TATTAATTTAATATT
11346822 TATCTTGTAG
Statistics
Matches: 30, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
17 10 0.33
18 2 0.07
19 4 0.13
20 14 0.47
ACGTcount: A:0.42, C:0.02, G:0.04, T:0.52
Consensus pattern (18 bp):
TATTAATTTAATATTAAA
Found at i:11348904 original size:23 final size:23
Alignment explanation
Indices: 11348878--11348924 Score: 76
Period size: 23 Copynumber: 2.0 Consensus size: 23
11348868 TTCAATTCAA
11348878 ATATGTCTCATACTCATCTTATT
1 ATATGTCTCATACTCATCTTATT
* *
11348901 ATATGTCTCCTAGTCATCTTATT
1 ATATGTCTCATACTCATCTTATT
11348924 A
1 A
11348925 GCATTCTTAC
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.26, C:0.21, G:0.06, T:0.47
Consensus pattern (23 bp):
ATATGTCTCATACTCATCTTATT
Found at i:11354486 original size:19 final size:19
Alignment explanation
Indices: 11354462--11354515 Score: 60
Period size: 19 Copynumber: 2.9 Consensus size: 19
11354452 AGTATCTTAA
11354462 TAATATTATTTTAATAGTT
1 TAATATTATTTTAATAGTT
*
11354481 TAATATTAATTT-A-A-TT
1 TAATATTATTTTAATAGTT
*
11354497 TAATACTTATCTTAATAGT
1 TAATA-TTATTTTAATAGT
11354516 ATTTTATCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 7
0.74 0.08 0.18
Matches are distributed among these distances:
16 7 0.25
17 6 0.21
18 2 0.07
19 12 0.43
20 1 0.04
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.54
Consensus pattern (19 bp):
TAATATTATTTTAATAGTT
Found at i:11354541 original size:17 final size:16
Alignment explanation
Indices: 11354503--11354546 Score: 63
Period size: 16 Copynumber: 2.7 Consensus size: 16
11354493 AATTTAATAC
11354503 TTATCTTAATAGTATT
1 TTATCTTAATAGTATT
11354519 TTATCTTAATAG-ATT
1 TTATCTTAATAGTATT
11354534 GATTATCTTAATA
1 --TTATCTTAATA
11354547 TTAAACTTAA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
15 3 0.12
16 12 0.46
17 11 0.42
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.52
Consensus pattern (16 bp):
TTATCTTAATAGTATT
Found at i:11354647 original size:11 final size:11
Alignment explanation
Indices: 11354627--11354655 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
11354617 TATCAAGATA
11354627 AATATT-ATAT
1 AATATTAATAT
11354637 AATATTAATAT
1 AATATTAATAT
11354648 AATATTAA
1 AATATTAA
11354656 AGTGATTAAG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 6 0.33
11 12 0.67
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
AATATTAATAT
Found at i:11361158 original size:17 final size:17
Alignment explanation
Indices: 11361108--11361175 Score: 55
Period size: 17 Copynumber: 4.0 Consensus size: 17
11361098 TAATAGTTCT
* *
11361108 TACCAAATGACAACTCA
1 TACCAAATAACAATTCA
* * * *
11361125 TGCAAAATAATAGTTCA
1 TACCAAATAACAATTCA
** *
11361142 TATGAAATATCAATTCA
1 TACCAAATAACAATTCA
11361159 TACCAAATAACAATTCA
1 TACCAAATAACAATTCA
11361176 CGCAAAATAA
Statistics
Matches: 36, Mismatches: 15, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
17 36 1.00
ACGTcount: A:0.49, C:0.19, G:0.06, T:0.26
Consensus pattern (17 bp):
TACCAAATAACAATTCA
Found at i:11361163 original size:51 final size:51
Alignment explanation
Indices: 11361086--11361185 Score: 139
Period size: 51 Copynumber: 2.0 Consensus size: 51
11361076 CCAAACATAT
* * * *
11361086 GTTCATATGAAATAATAGTTCTTACCAAATGACAACTCATGCAAAATAATA
1 GTTCATATGAAATAATAATTCATACCAAATAACAACTCACGCAAAATAATA
*
11361137 GTTCATATGAAAT-ATCAATTCATACCAAATAACAATTCACGCAAAATAA
1 GTTCATATGAAATAAT-AATTCATACCAAATAACAACTCACGCAAAATAA
11361186 CATTTCATGC
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
50 2 0.05
51 41 0.95
ACGTcount: A:0.47, C:0.17, G:0.08, T:0.28
Consensus pattern (51 bp):
GTTCATATGAAATAATAATTCATACCAAATAACAACTCACGCAAAATAATA
Found at i:11361886 original size:18 final size:18
Alignment explanation
Indices: 11361833--11361888 Score: 58
Period size: 18 Copynumber: 3.1 Consensus size: 18
11361823 CACGGTTTGA
**
11361833 CAAATTAATACAGTTTTC
1 CAAATTAATACAGTTCAC
* **
11361851 CATATTAATACAAATCAC
1 CAAATTAATACAGTTCAC
*
11361869 CAAATTAACACAGTTCAC
1 CAAATTAATACAGTTCAC
11361887 CA
1 CA
11361889 TAACAATATA
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.45, C:0.23, G:0.04, T:0.29
Consensus pattern (18 bp):
CAAATTAATACAGTTCAC
Found at i:11362364 original size:31 final size:33
Alignment explanation
Indices: 11362329--11362399 Score: 89
Period size: 33 Copynumber: 2.3 Consensus size: 33
11362319 CCCACACGCT
*
11362329 TATATATAT-GTATAT-TAAAA-AAA-CCCAT-
1 TATATATATACTATATATAAAATAAAGCCCATG
11362357 TAATATATATACTATATATAAAATAAAGCCCATG
1 T-ATATATATACTATATATAAAATAAAGCCCATG
11362391 TATATATAT
1 TATATATAT
11362400 CATAAGTTTA
Statistics
Matches: 36, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
28 1 0.03
29 8 0.22
30 5 0.14
31 5 0.14
32 3 0.08
33 13 0.36
34 1 0.03
ACGTcount: A:0.49, C:0.10, G:0.04, T:0.37
Consensus pattern (33 bp):
TATATATATACTATATATAAAATAAAGCCCATG
Found at i:11362389 original size:33 final size:31
Alignment explanation
Indices: 11362329--11362399 Score: 83
Period size: 29 Copynumber: 2.2 Consensus size: 31
11362319 CCCACACGCT
*
11362329 TATATATATGTATATTAAAAAAACCCAT-TA
1 TATATATATATATATTAAAAAAACCCATGTA
11362359 -ATATATATACTATATATAAAATAAAGCCCATGTA
1 TATATATATA-TATAT-TAAAA-AAA-CCCATGTA
11362393 TATATAT
1 TATATAT
11362400 CATAAGTTTA
Statistics
Matches: 34, Mismatches: 1, Indels: 7
0.81 0.02 0.17
Matches are distributed among these distances:
29 8 0.24
30 5 0.15
31 5 0.15
32 3 0.09
33 5 0.15
34 2 0.06
35 6 0.18
ACGTcount: A:0.49, C:0.10, G:0.04, T:0.37
Consensus pattern (31 bp):
TATATATATATATATTAAAAAAACCCATGTA
Found at i:11377899 original size:1 final size:1
Alignment explanation
Indices: 11377895--11377952 Score: 53
Period size: 1 Copynumber: 58.0 Consensus size: 1
11377885 AAGTAAAAGT
** * ** * *
11377895 AAAAAAAAAAAAAAAAAAACCAACATGAAAAGAAAAAATAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
11377953 CCAACATGAG
Statistics
Matches: 46, Mismatches: 11, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
1 46 1.00
ACGTcount: A:0.88, C:0.05, G:0.03, T:0.03
Consensus pattern (1 bp):
A
Found at i:11377937 original size:39 final size:39
Alignment explanation
Indices: 11377883--11377961 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
11377873 AGAATGAACA
* *
11377883 AAAAGTAAAAGTAAAAAAAAAAAAAAAAAAACCAACATG
1 AAAAGAAAAAATAAAAAAAAAAAAAAAAAAACCAACATG
11377922 AAAAGAAAAAATAAAAAAAAAAAAAAAAAAACCAACATG
1 AAAAGAAAAAATAAAAAAAAAAAAAAAAAAACCAACATG
11377961 A
1 A
11377962 GTTGCAGCTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.80, C:0.08, G:0.06, T:0.06
Consensus pattern (39 bp):
AAAAGAAAAAATAAAAAAAAAAAAAAAAAAACCAACATG
Found at i:11378518 original size:6 final size:6
Alignment explanation
Indices: 11378503--11378535 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
11378493 CATACCCGGA
*
11378503 ACCC-G ACCCAG ACCCAG ATCCAG ACCCAG ACCC
1 ACCCAG ACCCAG ACCCAG ACCCAG ACCCAG ACCC
11378536 GAACCCGAAC
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
5 4 0.16
6 21 0.84
ACGTcount: A:0.30, C:0.52, G:0.15, T:0.03
Consensus pattern (6 bp):
ACCCAG
Found at i:11378547 original size:18 final size:18
Alignment explanation
Indices: 11378496--11378548 Score: 63
Period size: 18 Copynumber: 2.9 Consensus size: 18
11378486 CCATAACCAT
*
11378496 ACCCGGAACCCGACCCAG
1 ACCCAGAACCCGACCCAG
* *
11378514 ACCCAGATCCAGACCCAG
1 ACCCAGAACCCGACCCAG
11378532 ACCC-GAACCCGAACCCA
1 ACCCAGAACCCG-ACCCA
11378549 AATCCATAAC
Statistics
Matches: 29, Mismatches: 5, Indels: 2
0.81 0.14 0.06
Matches are distributed among these distances:
17 5 0.17
18 24 0.83
ACGTcount: A:0.32, C:0.49, G:0.17, T:0.02
Consensus pattern (18 bp):
ACCCAGAACCCGACCCAG
Found at i:11379291 original size:19 final size:20
Alignment explanation
Indices: 11379261--11379348 Score: 90
Period size: 20 Copynumber: 4.5 Consensus size: 20
11379251 TAAAGAATAT
11379261 TAAAATAAATA-TAAAAATTG
1 TAAAA-AAATATTAAAAATTG
* *
11379281 TAAAAAAATATTAAAAAATA
1 TAAAAAAATATTAAAAATTG
* *
11379301 TAAAAAATTATTAAATATTG
1 TAAAAAAATATTAAAAATTG
* * *
11379321 TTAAAATAT-TTTAAAATTG
1 TAAAAAAATATTAAAAATTG
11379340 TAAAAAAAT
1 TAAAAAAAT
11379349 TTATTAAAAC
Statistics
Matches: 54, Mismatches: 13, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
19 20 0.37
20 34 0.63
ACGTcount: A:0.62, C:0.00, G:0.03, T:0.34
Consensus pattern (20 bp):
TAAAAAAATATTAAAAATTG
Found at i:11379291 original size:31 final size:29
Alignment explanation
Indices: 11379241--11379306 Score: 87
Period size: 31 Copynumber: 2.2 Consensus size: 29
11379231 AAGAATTTAT
* *
11379241 TAAAAATCGTTAAAGAATATTAAAATAAATA
1 TAAAAATCGTAAAAAAATATT-AAA-AAATA
*
11379272 TAAAAATTGTAAAAAAATATTAAAAAATA
1 TAAAAATCGTAAAAAAATATTAAAAAATA
11379301 TAAAAA
1 TAAAAA
11379307 ATTATTAAAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
29 11 0.34
30 3 0.09
31 18 0.56
ACGTcount: A:0.67, C:0.02, G:0.05, T:0.27
Consensus pattern (29 bp):
TAAAAATCGTAAAAAAATATTAAAAAATA
Found at i:11379296 original size:10 final size:10
Alignment explanation
Indices: 11379250--11379315 Score: 55
Period size: 10 Copynumber: 6.5 Consensus size: 10
11379240 TTAAAAATCG
*
11379250 TTAAAGAATA
1 TTAAAAAATA
11379260 TTAAAATAA-A
1 TTAAAA-AATA
* *
11379270 TATAAAAATTG
1 T-TAAAAAATA
*
11379281 TAAAAAAATA
1 TTAAAAAATA
11379291 TTAAAAAATA
1 TTAAAAAATA
11379301 -TAAAAAATTA
1 TTAAAAAA-TA
11379311 TTAAA
1 TTAAA
11379316 TATTGTTAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 9
0.73 0.12 0.15
Matches are distributed among these distances:
9 7 0.16
10 25 0.57
11 12 0.27
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (10 bp):
TTAAAAAATA
Found at i:11379350 original size:19 final size:19
Alignment explanation
Indices: 11379274--11379350 Score: 75
Period size: 19 Copynumber: 3.9 Consensus size: 19
11379264 AATAAATATA
*
11379274 AAAATTGTAAAAAAATATT
1 AAAATTGTAAAAAAATTTT
**
11379293 AAAA-AATATAAAAAATTATT
1 AAAATTGTA-AAAAAATT-TT
* *
11379313 AAATATTGTTAAAATATTTT
1 AAA-ATTGTAAAAAAATTTT
11379333 AAAATTGTAAAAAAATTT
1 AAAATTGTAAAAAAATTT
11379351 ATTAAAACTT
Statistics
Matches: 45, Mismatches: 9, Indels: 8
0.73 0.15 0.13
Matches are distributed among these distances:
18 2 0.04
19 24 0.53
20 10 0.22
21 8 0.18
22 1 0.02
ACGTcount: A:0.60, C:0.00, G:0.04, T:0.36
Consensus pattern (19 bp):
AAAATTGTAAAAAAATTTT
Found at i:11379517 original size:19 final size:19
Alignment explanation
Indices: 11379479--11379516 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
11379469 TGGAATTTAA
11379479 TAAATAATTTCATAAATTT
1 TAAATAATTTCATAAATTT
*
11379498 TAAATAATTTTAT-AATTT
1 TAAATAATTTCATAAATTT
11379516 T
1 T
11379517 TGAGAAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
18 6 0.33
19 12 0.67
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (19 bp):
TAAATAATTTCATAAATTT
Found at i:11384421 original size:20 final size:20
Alignment explanation
Indices: 11384338--11384495 Score: 88
Period size: 20 Copynumber: 7.8 Consensus size: 20
11384328 TTTGATTTGT
* *
11384338 TAATTATTTACAACTTTTTAA
1 TAATTTTTTATAA-TTTTTAA
* ** *
11384359 TAATTATTTATGGTTTTGAA
1 TAATTTTTTATAATTTTTAA
* * *
11384379 TAATTTTTCTAAAAATTTAAA
1 TAATTTTT-TATAATTTTTAA
*
11384400 TAATTTTTTATTATTTTTAA
1 TAATTTTTTATAATTTTTAA
* *
11384420 TAAATTTTTACAA-TTTTAA
1 TAATTTTTTATAATTTTTAA
* *
11384439 -AATATTTTTAACAATATTTAA
1 TAAT-TTTTT-ATAATTTTTAA
** *
11384460 TTTTTTTTTACAATTTTT-A
1 TAATTTTTTATAATTTTTAA
*
11384479 TTATTTTTTGATAATTT
1 TAATTTTTT-ATAATTT
11384496 AAAATTTTTA
Statistics
Matches: 107, Mismatches: 24, Indels: 13
0.74 0.17 0.09
Matches are distributed among these distances:
18 2 0.02
19 20 0.19
20 49 0.46
21 35 0.33
22 1 0.01
ACGTcount: A:0.35, C:0.04, G:0.03, T:0.58
Consensus pattern (20 bp):
TAATTTTTTATAATTTTTAA
Found at i:11384436 original size:19 final size:19
Alignment explanation
Indices: 11384414--11384476 Score: 65
Period size: 19 Copynumber: 3.2 Consensus size: 19
11384404 TTTTTATTAT
11384414 TTTTAATAAATTTTTACAA
1 TTTTAATAAATTTTTACAA
11384433 TTTTAA-AATATTTTTAACAA
1 TTTTAATAA-ATTTTT-ACAA
***
11384453 TATTTAATTTTTTTTTACAA
1 T-TTTAATAAATTTTTACAA
11384473 TTTT
1 TTTT
11384477 TATTATTTTT
Statistics
Matches: 37, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
18 2 0.05
19 15 0.41
20 10 0.27
21 10 0.27
ACGTcount: A:0.37, C:0.05, G:0.00, T:0.59
Consensus pattern (19 bp):
TTTTAATAAATTTTTACAA
Found at i:11384442 original size:41 final size:40
Alignment explanation
Indices: 11384339--11384447 Score: 103
Period size: 41 Copynumber: 2.6 Consensus size: 40
11384329 TTGATTTGTT
* * *
11384339 AATTATTTACAACTTTTTAATAATTATTTATGGTTTTGAATA
1 AATT-TTTACAA-TTTTAAATAATTTTTTATGATTTTGAATA
* * * * *
11384381 ATTTTTCTAAAAATTTAAATAATTTTTTATTATTTTTAATA
1 AATTTT-TACAATTTTAAATAATTTTTTATGATTTTGAATA
11384422 AATTTTTACAATTTTAAA-ATATTTTT
1 AATTTTTACAATTTTAAATA-ATTTTT
11384448 AACAATATTT
Statistics
Matches: 54, Mismatches: 11, Indels: 6
0.76 0.15 0.08
Matches are distributed among these distances:
39 1 0.02
40 16 0.30
41 30 0.56
42 7 0.13
ACGTcount: A:0.38, C:0.04, G:0.03, T:0.56
Consensus pattern (40 bp):
AATTTTTACAATTTTAAATAATTTTTTATGATTTTGAATA
Found at i:11384927 original size:24 final size:24
Alignment explanation
Indices: 11384900--11384949 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
11384890 TTGATTTGAG
*
11384900 ATTTAATTATTATTTTTAT-TTTTT
1 ATTTAATT-TGATTTTTATATTTTT
*
11384924 ATTTAATTTGGTTTTTATATTTTT
1 ATTTAATTTGATTTTTATATTTTT
11384948 AT
1 AT
11384950 AATATTATTA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
23 8 0.35
24 15 0.65
ACGTcount: A:0.24, C:0.00, G:0.04, T:0.72
Consensus pattern (24 bp):
ATTTAATTTGATTTTTATATTTTT
Found at i:11384955 original size:29 final size:28
Alignment explanation
Indices: 11384940--11384995 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 28
11384930 TTTGGTTTTT
11384940 ATATTTTTATAATATTATTAATTAGTTTA
1 ATATTTTTATAATA-TATTAATTAGTTTA
11384969 ATATTTTTATAATATAATTAATTAGTT
1 ATATTTTTATAATAT-ATTAATTAGTT
11384996 CAAATAGTTA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
28 1 0.04
29 25 0.96
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (28 bp):
ATATTTTTATAATATATTAATTAGTTTA
Found at i:11385067 original size:21 final size:21
Alignment explanation
Indices: 11385035--11385082 Score: 55
Period size: 21 Copynumber: 2.3 Consensus size: 21
11385025 TTAAAATATT
*
11385035 AGTAG-TTATATATAATTTGAA
1 AGTAGATTATATA-AATTTAAA
11385056 AGTAGATT-TATAAATTTAAA
1 AGTAGATTATATAAATTTAAA
11385076 AGGTAGA
1 A-GTAGA
11385083 GGGATTAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 8 0.33
21 14 0.58
22 2 0.08
ACGTcount: A:0.46, C:0.00, G:0.17, T:0.38
Consensus pattern (21 bp):
AGTAGATTATATAAATTTAAA
Found at i:11385077 original size:20 final size:22
Alignment explanation
Indices: 11385043--11385082 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
11385033 TTAGTAGTTA
*
11385043 TATATAATTTGAAA-GTAGATT
1 TATATAATTTAAAAGGTAGATT
11385064 TATA-AATTTAAAAGGTAGA
1 TATATAATTTAAAAGGTAGA
11385083 GGGATTAAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 8 0.47
21 9 0.53
ACGTcount: A:0.47, C:0.00, G:0.15, T:0.38
Consensus pattern (22 bp):
TATATAATTTAAAAGGTAGATT
Found at i:11390966 original size:35 final size:35
Alignment explanation
Indices: 11390882--11390972 Score: 128
Period size: 35 Copynumber: 2.6 Consensus size: 35
11390872 GTACATCGAC
*
11390882 AATCCAACCAAAACACACCAATGCTCGTTAGAGCT
1 AATCCAACCAAAACACACCAATGCTCGTAAGAGCT
** *
11390917 AATCCCTCTAAAACACACCAATGCTCGTAAGAGCT
1 AATCCAACCAAAACACACCAATGCTCGTAAGAGCT
* *
11390952 AGTCCAACCGAAACACACCAA
1 AATCCAACCAAAACACACCAA
11390973 AACAAAGAGT
Statistics
Matches: 47, Mismatches: 9, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 47 1.00
ACGTcount: A:0.41, C:0.33, G:0.11, T:0.15
Consensus pattern (35 bp):
AATCCAACCAAAACACACCAATGCTCGTAAGAGCT
Found at i:11398148 original size:17 final size:16
Alignment explanation
Indices: 11398098--11398155 Score: 53
Period size: 17 Copynumber: 3.2 Consensus size: 16
11398088 GGGTGAGAAG
11398098 TAAAAGTTTAGGGGAAAAA
1 TAAAAGTTTA-GGG--AAA
*
11398117 TAAAAAGTTTTGGGAAA
1 T-AAAAGTTTAGGGAAA
11398134 TAAAAGTTTGAGGGAAA
1 TAAAAGTTT-AGGGAAA
11398151 GTAAA
1 -TAAA
11398156 TAGGGGGAGT
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
16 8 0.24
17 10 0.29
18 4 0.12
19 4 0.12
20 8 0.24
ACGTcount: A:0.50, C:0.00, G:0.26, T:0.24
Consensus pattern (16 bp):
TAAAAGTTTAGGGAAA
Found at i:11402667 original size:30 final size:30
Alignment explanation
Indices: 11402631--11402734 Score: 115
Period size: 30 Copynumber: 3.5 Consensus size: 30
11402621 GTCGTAGAAT
11402631 AGTTCATATCACCCGGACATGGATAGCTT-G
1 AGTTCATATCACCCGGACATGGAT-GCTTCG
* *
11402661 AGTTCATATCACCCGGACATGGGTGGTTCG
1 AGTTCATATCACCCGGACATGGATGCTTCG
**
11402691 AGTTCATATCACCCCAACATAGGCA-G-TTCG
1 AGTTCATATCACCCGGACAT-GG-ATGCTTCG
*
11402721 AGTTCATTTCACCC
1 AGTTCATATCACCC
11402735 AGAGCAACCA
Statistics
Matches: 65, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
29 3 0.05
30 59 0.91
31 3 0.05
ACGTcount: A:0.25, C:0.27, G:0.21, T:0.27
Consensus pattern (30 bp):
AGTTCATATCACCCGGACATGGATGCTTCG
Found at i:11406089 original size:12 final size:11
Alignment explanation
Indices: 11406071--11406105 Score: 52
Period size: 11 Copynumber: 3.1 Consensus size: 11
11406061 TTTTTAAAAT
*
11406071 TTTAAATTTAA
1 TTTAAAATTAA
11406082 TTTAAAATTAA
1 TTTAAAATTAA
11406093 TTTAAAAATTAA
1 TTT-AAAATTAA
11406105 T
1 T
11406106 AATTTATAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
11 13 0.59
12 9 0.41
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (11 bp):
TTTAAAATTAA
Found at i:11406146 original size:29 final size:29
Alignment explanation
Indices: 11406081--11406162 Score: 80
Period size: 30 Copynumber: 2.8 Consensus size: 29
11406071 TTTAAATTTA
* *
11406081 ATTTAAAATTAATTTAAAA-ATTAATAAT
1 ATTTAAAATTAATTTAAAATATAAAAAAT
11406109 -TTATAAAAATTATATTTAAAATA-AAAAAAT
1 ATT-T-AAAATTA-ATTTAAAATATAAAAAAT
11406139 ATTTAAAATATACATTTAAAATAT
1 ATTTAAAAT-TA-ATTTAAAATAT
11406163 TATAAAACAA
Statistics
Matches: 44, Mismatches: 3, Indels: 11
0.76 0.05 0.19
Matches are distributed among these distances:
27 2 0.05
28 1 0.02
29 12 0.27
30 26 0.59
31 3 0.07
ACGTcount: A:0.59, C:0.01, G:0.00, T:0.40
Consensus pattern (29 bp):
ATTTAAAATTAATTTAAAATATAAAAAAT
Found at i:11406234 original size:28 final size:30
Alignment explanation
Indices: 11406194--11406268 Score: 93
Period size: 28 Copynumber: 2.6 Consensus size: 30
11406184 GAAAGGTCAT
* * *
11406194 ATTTTAAAAATTATATAT-TTTTAAAA-AA
1 ATTTAAAAAATTATAAATATTATAAAACAA
11406222 ATTTAAAAAATTATAAATATTATAAAACAA
1 ATTTAAAAAATTATAAATATTATAAAACAA
11406252 A-TTAAAAATATTATAAA
1 ATTTAAAAA-ATTATAAA
11406269 ACAAATTTTA
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
28 16 0.39
29 14 0.34
30 11 0.27
ACGTcount: A:0.60, C:0.01, G:0.00, T:0.39
Consensus pattern (30 bp):
ATTTAAAAAATTATAAATATTATAAAACAA
Found at i:11406254 original size:21 final size:21
Alignment explanation
Indices: 11406229--11406280 Score: 86
Period size: 21 Copynumber: 2.5 Consensus size: 21
11406219 AAAATTTAAA
11406229 AAATTATAAATATTATAAAAC
1 AAATTATAAATATTATAAAAC
*
11406250 AAATTAAAAATATTATAAAAC
1 AAATTATAAATATTATAAAAC
*
11406271 AAATTTTAAA
1 AAATTATAAA
11406281 AAAATTAATA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.63, C:0.04, G:0.00, T:0.33
Consensus pattern (21 bp):
AAATTATAAATATTATAAAAC
Found at i:11406394 original size:20 final size:21
Alignment explanation
Indices: 11406362--11406452 Score: 132
Period size: 21 Copynumber: 4.3 Consensus size: 21
11406352 ATTTAAATGT
*
11406362 TTTATATTATTAAAAAAT-ATA
1 TTTAAATT-TTAAAAAATAATA
11406383 TTTAAATTTTAAAAAATAATA
1 TTTAAATTTTAAAAAATAATA
11406404 TTTAAATTTTAAAAAAT-ATA
1 TTTAAATTTTAAAAAATAATA
11406424 TTTAAAATTTTAAAAAATAATA
1 TTT-AAATTTTAAAAAATAATA
11406446 TTATAAA
1 TT-TAAA
11406453 ACATTTCAAA
Statistics
Matches: 65, Mismatches: 1, Indels: 7
0.89 0.01 0.10
Matches are distributed among these distances:
20 15 0.23
21 41 0.63
22 8 0.12
23 1 0.02
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (21 bp):
TTTAAATTTTAAAAAATAATA
Found at i:11406433 original size:42 final size:42
Alignment explanation
Indices: 11406362--11406452 Score: 148
Period size: 42 Copynumber: 2.1 Consensus size: 42
11406352 ATTTAAATGT
*
11406362 TTTATATTATTAAAAAATATATTTAAATTTTAAAAAATAATA
1 TTTAAATTATTAAAAAATATATTTAAATTTTAAAAAATAATA
11406404 TTTAAATT-TTAAAAAATATATTTAAAATTTTAAAAAATAATA
1 TTTAAATTATTAAAAAATATATTT-AAATTTTAAAAAATAATA
11406446 TTATAAA
1 TT-TAAA
11406453 ACATTTCAAA
Statistics
Matches: 46, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
41 15 0.33
42 27 0.59
43 4 0.09
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (42 bp):
TTTAAATTATTAAAAAATATATTTAAATTTTAAAAAATAATA
Found at i:11407217 original size:15 final size:15
Alignment explanation
Indices: 11407197--11407227 Score: 62
Period size: 15 Copynumber: 2.1 Consensus size: 15
11407187 TGAAAGCTAA
11407197 TGCAAAAACTGTGTT
1 TGCAAAAACTGTGTT
11407212 TGCAAAAACTGTGTT
1 TGCAAAAACTGTGTT
11407227 T
1 T
11407228 AGCCAAGTCA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.32, C:0.13, G:0.19, T:0.35
Consensus pattern (15 bp):
TGCAAAAACTGTGTT
Found at i:11407817 original size:49 final size:49
Alignment explanation
Indices: 11407745--11407842 Score: 160
Period size: 49 Copynumber: 2.0 Consensus size: 49
11407735 TGGCGATAAA
* *
11407745 GTTATAGGTTCGATTCTGCCAGCGCGTTTTCTTCAACGAAAATTATCGG
1 GTTATAGGTTCGATTCTGCCAGCGAGTTTTCTTCAACCAAAATTATCGG
* *
11407794 GTTATAGGTTCGATTCTGCCAGCGATTTTTCTTCAACCAAAATTGTCGG
1 GTTATAGGTTCGATTCTGCCAGCGAGTTTTCTTCAACCAAAATTATCGG
11407843 AAGAGGGAGC
Statistics
Matches: 45, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
49 45 1.00
ACGTcount: A:0.22, C:0.20, G:0.21, T:0.36
Consensus pattern (49 bp):
GTTATAGGTTCGATTCTGCCAGCGAGTTTTCTTCAACCAAAATTATCGG
Found at i:11408526 original size:4 final size:4
Alignment explanation
Indices: 11408517--11408542 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
11408507 ATATTTTAAT
11408517 ATTA ATTA ATTA ATTA ATTA ATTA AT
1 ATTA ATTA ATTA ATTA ATTA ATTA AT
11408543 AAAATGGATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (4 bp):
ATTA
Done.