Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr11 124536837
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: 124536837
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 312 characters in sequence are not A, C, G, or T
File 79 of 427
Found at i:19760944 original size:63 final size:63
Alignment explanation
Indices: 19760866--19760993 Score: 256
Period size: 63 Copynumber: 2.0 Consensus size: 63
19760856 CATGAACATT
19760866 AAGTTCATGCCTTTCATTTTCAATCTCAATTTCAATCCATTATTCAACTTTTTAGTTTCTTTC
1 AAGTTCATGCCTTTCATTTTCAATCTCAATTTCAATCCATTATTCAACTTTTTAGTTTCTTTC
19760929 AAGTTCATGCCTTTCATTTTCAATCTCAATTTCAATCCATTATTCAACTTTTTAGTTTCTTTC
1 AAGTTCATGCCTTTCATTTTCAATCTCAATTTCAATCCATTATTCAACTTTTTAGTTTCTTTC
19760992 AA
1 AA
19760994 TATTTCAATA
Statistics
Matches: 65, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
63 65 1.00
ACGTcount: A:0.25, C:0.22, G:0.05, T:0.48
Consensus pattern (63 bp):
AAGTTCATGCCTTTCATTTTCAATCTCAATTTCAATCCATTATTCAACTTTTTAGTTTCTTTC
Found at i:19760993 original size:30 final size:30
Alignment explanation
Indices: 19760895--19760994 Score: 89
Period size: 30 Copynumber: 3.2 Consensus size: 30
19760885 TCAATCTCAA
19760895 TTTCAATCCATTATTCAACTTTTTAGTTTC
1 TTTCAATCCATTATTCAACTTTTTAGTTTC
* * * *
19760925 TTTCAAGTTCATGCCT-TTC-A-TTTTCAATCTC
1 TTTCAA-TCCAT---TATTCAACTTTTTAGTTTC
19760956 AATTTCAATCCATTATTCAACTTTTTAGTTTC
1 --TTTCAATCCATTATTCAACTTTTTAGTTTC
19760988 TTTCAAT
1 TTTCAAT
19760995 ATTTCAATAA
Statistics
Matches: 53, Mismatches: 8, Indels: 18
0.67 0.10 0.23
Matches are distributed among these distances:
29 1 0.02
30 16 0.30
31 13 0.25
32 13 0.25
33 9 0.17
34 1 0.02
ACGTcount: A:0.24, C:0.21, G:0.04, T:0.51
Consensus pattern (30 bp):
TTTCAATCCATTATTCAACTTTTTAGTTTC
Found at i:19761230 original size:23 final size:23
Alignment explanation
Indices: 19761148--19761234 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
19761138 CCTGATCAGT
*
19761148 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACAAAGTGCCTGAA
* *
19761170 A-ACGACACACGAGGTGCCTG--
1 ATACGACACACAAAGTGCCTGAA
* *
19761190 ATACGACACACGAGGTGCCTGAA
1 ATACGACACACAAAGTGCCTGAA
*
19761213 ATACGACACATAAAGTGCCTGA
1 ATACGACACACAAAGTGCCTGA
19761235 TCGATAAAGC
Statistics
Matches: 55, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
20 1 0.02
21 34 0.62
22 1 0.02
23 19 0.35
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACAAAGTGCCTGAA
Found at i:19762730 original size:27 final size:30
Alignment explanation
Indices: 19762685--19762739 Score: 71
Period size: 27 Copynumber: 1.9 Consensus size: 30
19762675 GCTCGAATGC
*
19762685 TTTCTGTTCTCTTTTCTCT-ATTCTTTTTG
1 TTTCTGTTCTCTTTACTCTGATTCTTTTTG
*
19762714 TTTCT-TT-TCTTTACTCTGTTTCTTTT
1 TTTCTGTTCTCTTTACTCTGATTCTTTT
19762740 ATTCACTTTA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
27 9 0.39
28 9 0.39
29 5 0.22
ACGTcount: A:0.04, C:0.20, G:0.05, T:0.71
Consensus pattern (30 bp):
TTTCTGTTCTCTTTACTCTGATTCTTTTTG
Found at i:19767533 original size:6 final size:6
Alignment explanation
Indices: 19767522--19767551 Score: 60
Period size: 6 Copynumber: 5.0 Consensus size: 6
19767512 AAGTAGAAGC
19767522 AAATAA AAATAA AAATAA AAATAA AAATAA
1 AAATAA AAATAA AAATAA AAATAA AAATAA
19767552 TTAATAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 24 1.00
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:19770968 original size:48 final size:50
Alignment explanation
Indices: 19770890--19771004 Score: 123
Period size: 49 Copynumber: 2.4 Consensus size: 50
19770880 ATTTTTTTAA
* * *
19770890 AAAATAAAATGTT-AAAGATATGTATAAATTA-AAAAAATCTAAAT-ATTC
1 AAAATAAAAT-TTAAAAAATATATATAAATTAGAAAAAATATAAATAATTC
*
19770938 AAAATAAAATTTAAAAAAT-TATATATAATTAGATAAAATATAAATAATTC
1 AAAATAAAATTTAAAAAATATATATA-AATTAGAAAAAATATAAATAATTC
* *
19770988 AATAT-ATATTTAAAAAA
1 AAAATAAAATTTAAAAAA
19771005 AATCAAAACA
Statistics
Matches: 57, Mismatches: 6, Indels: 7
0.81 0.09 0.10
Matches are distributed among these distances:
47 7 0.12
48 20 0.35
49 22 0.39
50 8 0.14
ACGTcount: A:0.61, C:0.03, G:0.03, T:0.33
Consensus pattern (50 bp):
AAAATAAAATTTAAAAAATATATATAAATTAGAAAAAATATAAATAATTC
Found at i:19776127 original size:57 final size:56
Alignment explanation
Indices: 19776030--19776239 Score: 228
Period size: 57 Copynumber: 3.7 Consensus size: 56
19776020 ACATATCATA
* * **
19776030 TAAT-AGGATTACCAGTCCAGGCTAAATCCTGTCTCCAACATATGCTCATAAGAGCT
1 TAATCAGGATTACCAGT-CTGGCTAAATCCTTTCTGTAACATATGCTCATAAGAGCT
*
19776086 TAATCAGGATTACCAGTCCTGGCTAAATCCTTTTTGTAACATATGCTC-TAAAGAGCT
1 TAATCAGGATTACCAGT-CTGGCTAAATCCTTTCTGTAACATATGCTCAT-AAGAGCT
* * ** * *
19776143 TAATCTGGATTACCCGTCTGCGCTAAATCCAATCTATAACATATGCTCGA-GAGAGCT
1 TAATCAGGATTACCAGTCTG-GCTAAATCCTTTCTGTAACATATGCTC-ATAAGAGCT
*
19776200 TATATCAGGATTACCCGTCTAGGCTAAATCCTTTCTGTAA
1 TA-ATCAGGATTACCAGTCT-GGCTAAATCCTTTCTGTAA
19776240 TGAGGTTAAT
Statistics
Matches: 131, Mismatches: 16, Indels: 12
0.82 0.10 0.08
Matches are distributed among these distances:
56 8 0.06
57 91 0.69
58 31 0.24
59 1 0.01
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.30
Consensus pattern (56 bp):
TAATCAGGATTACCAGTCTGGCTAAATCCTTTCTGTAACATATGCTCATAAGAGCT
Found at i:19782175 original size:29 final size:29
Alignment explanation
Indices: 19782143--19782199 Score: 73
Period size: 29 Copynumber: 2.0 Consensus size: 29
19782133 TATTTTTTTA
19782143 ATTTTATAATAATAATATA-ATA-ATATAAT
1 ATTTTATAA-AA-AATATATATATATATAAT
*
19782172 ATTTTATGAAAAATATATATATATATAA
1 ATTTTATAAAAAATATATATATATATAA
19782200 ATACTAAAAA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
27 6 0.24
28 5 0.20
29 14 0.56
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.44
Consensus pattern (29 bp):
ATTTTATAAAAAATATATATATATATAAT
Found at i:19783257 original size:17 final size:17
Alignment explanation
Indices: 19783208--19783257 Score: 50
Period size: 17 Copynumber: 3.0 Consensus size: 17
19783198 AAATACATAA
19783208 ATATCTTT-AAAATA-T
1 ATATCTTTAAAAATATT
* **
19783223 ATACTTTTTAAATTTATT
1 ATA-TCTTTAAAAATATT
19783241 ATATCTTTAAAAATATT
1 ATATCTTTAAAAATATT
19783258 CACGTATTTA
Statistics
Matches: 26, Mismatches: 6, Indels: 4
0.72 0.17 0.11
Matches are distributed among these distances:
15 3 0.12
16 4 0.15
17 15 0.58
18 4 0.15
ACGTcount: A:0.42, C:0.06, G:0.00, T:0.52
Consensus pattern (17 bp):
ATATCTTTAAAAATATT
Found at i:19788717 original size:21 final size:21
Alignment explanation
Indices: 19788691--19788773 Score: 76
Period size: 21 Copynumber: 3.9 Consensus size: 21
19788681 TGATCAGTAT
*
19788691 ACGACACATAAAGTGCCTAAA
1 ACGACACACAAAGTGCCTAAA
* * * *
19788712 ACGACACACGAGGTGCCTGAT
1 ACGACACACAAAGTGCCTAAA
* *
19788733 ACGACACACGAGGTGCCTAAAA
1 ACGACACACAAAGTGCCT-AAA
*
19788755 TACGACACATAAAGTGCCT
1 -ACGACACACAAAGTGCCT
19788774 GATCGATAAA
Statistics
Matches: 50, Mismatches: 10, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
21 34 0.68
22 1 0.02
23 15 0.30
ACGTcount: A:0.39, C:0.27, G:0.20, T:0.14
Consensus pattern (21 bp):
ACGACACACAAAGTGCCTAAA
Found at i:19788757 original size:23 final size:22
Alignment explanation
Indices: 19788689--19788763 Score: 91
Period size: 21 Copynumber: 3.5 Consensus size: 22
19788679 CCTGATCAGT
** *
19788689 ATACGACACATAAAGTGCCTAA
1 ATACGACACACGAGGTGCCTAA
*
19788711 A-ACGACACACGAGGTGCCT-G
1 ATACGACACACGAGGTGCCTAA
19788731 ATACGACACACGAGGTGCCTAAA
1 ATACGACACACGAGGTGCCT-AA
19788754 ATACGACACA
1 ATACGACACA
19788764 TAAAGTGCCT
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
20 1 0.02
21 33 0.73
22 1 0.02
23 10 0.22
ACGTcount: A:0.40, C:0.27, G:0.20, T:0.13
Consensus pattern (22 bp):
ATACGACACACGAGGTGCCTAA
Found at i:19789173 original size:15 final size:15
Alignment explanation
Indices: 19789148--19789201 Score: 81
Period size: 15 Copynumber: 3.5 Consensus size: 15
19789138 TCATATATAT
19789148 TATATAATTCAATCAA
1 TATA-AATTCAATCAA
19789164 TATAAATTCAATCAA
1 TATAAATTCAATCAA
* *
19789179 AATAATTTCAATCAA
1 TATAAATTCAATCAA
19789194 TATAAATT
1 TATAAATT
19789202 TAATAAATTC
Statistics
Matches: 34, Mismatches: 4, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
15 30 0.88
16 4 0.12
ACGTcount: A:0.52, C:0.11, G:0.00, T:0.37
Consensus pattern (15 bp):
TATAAATTCAATCAA
Found at i:19791814 original size:14 final size:14
Alignment explanation
Indices: 19791795--19791821 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
19791785 TTTTATTGCA
19791795 CACTTGTATTTTAC
1 CACTTGTATTTTAC
19791809 CACTTGTATTTTA
1 CACTTGTATTTTA
19791822 TTTATCATGA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.22, C:0.19, G:0.07, T:0.52
Consensus pattern (14 bp):
CACTTGTATTTTAC
Found at i:19792279 original size:16 final size:17
Alignment explanation
Indices: 19792258--19792292 Score: 54
Period size: 16 Copynumber: 2.1 Consensus size: 17
19792248 ATGAAATGAA
*
19792258 TATTTGTGTT-ATTATT
1 TATTTGTATTAATTATT
19792274 TATTTGTATTAATTATT
1 TATTTGTATTAATTATT
19792291 TA
1 TA
19792293 ATAATTTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 9 0.53
17 8 0.47
ACGTcount: A:0.26, C:0.00, G:0.09, T:0.66
Consensus pattern (17 bp):
TATTTGTATTAATTATT
Found at i:19794421 original size:11 final size:11
Alignment explanation
Indices: 19794405--19794430 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
19794395 TGTTGTATTT
19794405 ATAAAATTTTA
1 ATAAAATTTTA
19794416 ATAAAATTTTA
1 ATAAAATTTTA
19794427 ATAA
1 ATAA
19794431 TATAAATATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (11 bp):
ATAAAATTTTA
Found at i:19794637 original size:28 final size:28
Alignment explanation
Indices: 19794606--19794662 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
19794596 TCATAAAAGA
19794606 TAGTGAAATTTTTTTAACTCAATGAAAC
1 TAGTGAAATTTTTTTAACTCAATGAAAC
19794634 TAGTGAAATTTTTTTAACTCAATGAAAC
1 TAGTGAAATTTTTTTAACTCAATGAAAC
19794662 T
1 T
19794663 GTTATGTATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.39, C:0.11, G:0.11, T:0.40
Consensus pattern (28 bp):
TAGTGAAATTTTTTTAACTCAATGAAAC
Found at i:19797618 original size:22 final size:20
Alignment explanation
Indices: 19797571--19797612 Score: 84
Period size: 20 Copynumber: 2.1 Consensus size: 20
19797561 AGGTTAAAGT
19797571 TAACAAGTATCCTATAAAAA
1 TAACAAGTATCCTATAAAAA
19797591 TAACAAGTATCCTATAAAAA
1 TAACAAGTATCCTATAAAAA
19797611 TA
1 TA
19797613 TAACAAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.55, C:0.14, G:0.05, T:0.26
Consensus pattern (20 bp):
TAACAAGTATCCTATAAAAA
Found at i:19799688 original size:29 final size:30
Alignment explanation
Indices: 19799645--19799703 Score: 84
Period size: 29 Copynumber: 2.0 Consensus size: 30
19799635 GAATTGGATC
* *
19799645 AAATCAAAATTTCATGTATAAAATTGCACA
1 AAATCAAAAGTTCATATATAAAATTGCACA
*
19799675 AAATC-AAAGTTCATATATACAATTGCACA
1 AAATCAAAAGTTCATATATAAAATTGCACA
19799704 TTAAACTATA
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
29 21 0.81
30 5 0.19
ACGTcount: A:0.49, C:0.15, G:0.07, T:0.29
Consensus pattern (30 bp):
AAATCAAAAGTTCATATATAAAATTGCACA
Found at i:19803925 original size:27 final size:27
Alignment explanation
Indices: 19803906--19804089 Score: 269
Period size: 27 Copynumber: 6.8 Consensus size: 27
19803896 ATTACCAAAG
19803906 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
19803933 TACCTTCGATTTATAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* * *
19803960 TACCCTCGATTTATAGAATTAACATTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
19803987 TACCCTCAATTTACAGAATTACCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
19804014 TACCCTCAATTTACAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
* *
19804041 TACCCTCGATTTATAGAATTATCGTTT
1 TACCCTCGATTTACAGAATTACCGTTT
*
19804068 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
19804090 TAAAATACCC
Statistics
Matches: 142, Mismatches: 15, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 142 1.00
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (27 bp):
TACCCTCGATTTACAGAATTACCGTTT
Found at i:19804005 original size:81 final size:81
Alignment explanation
Indices: 19803906--19804089 Score: 296
Period size: 81 Copynumber: 2.3 Consensus size: 81
19803896 ATTACCAAAG
* * *
19803906 TACCCTCGATTTACAGAATTACCGTTTTACCTTCGATTTATAGAATTACCGTTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCAATTTACAGAATTACCGTTTTACCCTCGATT
19803971 TATAGAATTAACATTT
66 TATAGAATTAACATTT
* *
19803987 TACCCTCAATTTACAGAATTACCGTTTTACCCTCAATTTACAGAATTATCGTTTTACCCTCGATT
1 TACCCTCGATTTACAGAATTACCGTTTTACCCTCAATTTACAGAATTACCGTTTTACCCTCGATT
* *
19804052 TATAGAATTATCGTTT
66 TATAGAATTAACATTT
*
19804068 TACCCTCGATTTACAAAATTAC
1 TACCCTCGATTTACAGAATTAC
19804090 TAAAATACCC
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
81 94 1.00
ACGTcount: A:0.29, C:0.22, G:0.09, T:0.40
Consensus pattern (81 bp):
TACCCTCGATTTACAGAATTACCGTTTTACCCTCAATTTACAGAATTACCGTTTTACCCTCGATT
TATAGAATTAACATTT
Found at i:19804098 original size:27 final size:27
Alignment explanation
Indices: 19804068--19804266 Score: 156
Period size: 27 Copynumber: 7.3 Consensus size: 27
19804058 ATTATCGTTT
*
19804068 TACCCTCGATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAAAATTACTAAAA
* *
19804095 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACTAAAA
* ***
19804122 TACCAC-TGGTTTGTGAAATTA-TCAAAA
1 TACC-CTTGATTTACAAAATTACT-AAAA
* ** *
19804149 TACCCTTAATTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACTAAAA
* *
19804176 TACCCTTAATTTATAAAATTAC-AGAAA
1 TACCCTTGATTTACAAAATTACTA-AAA
19804203 TACCCTTGACTTT-CTAAAAATTA-TAGAAA
1 TACCCTTGA-TTTAC--AAAATTACTA-AAA
* * *
19804232 TACCATTGGTTTACAAAATTACTGAAA
1 TACCCTTGATTTACAAAATTACTAAAA
19804259 TACCCTTG
1 TACCCTTG
19804267 GTTTGTAGAT
Statistics
Matches: 143, Mismatches: 18, Indels: 22
0.78 0.10 0.12
Matches are distributed among these distances:
26 2 0.01
27 113 0.79
28 8 0.06
29 20 0.14
ACGTcount: A:0.41, C:0.19, G:0.08, T:0.33
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTACTAAAA
Found at i:19804115 original size:81 final size:81
Alignment explanation
Indices: 19803949--19804117 Score: 212
Period size: 81 Copynumber: 2.1 Consensus size: 81
19803939 CGATTTATAG
* ****
19803949 AATTACCGTTTTACCCTCGATTTATAGAATTAACATTTTACCCTCAATTTACAGAATTACCGTTT
1 AATTACCGTTTTACCCTCGATTTATAGAATTAACATTTTACCCTCAATTTACAAAATTACCAAAA
*
19804014 TACCCTCAATTTACAG
66 TACCCTCAATTTACAA
* * * * *
19804030 AATTATCGTTTTACCCTCGATTTATAGAATTATCGTTTTACCCTCGATTTACAAAATTACTAAAA
1 AATTACCGTTTTACCCTCGATTTATAGAATTAACATTTTACCCTCAATTTACAAAATTACCAAAA
***
19804095 TACCCTTGGTTTACAA
66 TACCCTCAATTTACAA
19804111 AATTACC
1 AATTACC
19804118 AAAATACCAC
Statistics
Matches: 73, Mismatches: 15, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
81 73 1.00
ACGTcount: A:0.32, C:0.22, G:0.08, T:0.38
Consensus pattern (81 bp):
AATTACCGTTTTACCCTCGATTTATAGAATTAACATTTTACCCTCAATTTACAAAATTACCAAAA
TACCCTCAATTTACAA
Found at i:19804330 original size:137 final size:136
Alignment explanation
Indices: 19804082--19804330 Score: 283
Period size: 137 Copynumber: 1.8 Consensus size: 136
19804072 CTCGATTTAC
* *
19804082 AAAATTACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCACTGGTTTGTGAAATTATCAA
1 AAAATTACTAAAATACCATTGGTTTACAAAATTACCAAAATACCACTGGTTTGTGAAATTACCAA
* * * * **
19804147 AATACCCTTAATTTGTAAAATTACCAAAATACCCTTAATTTATAAAATTACAGAAATACCCTTGA
66 AACACCCTTAATATG-AAAATGACCAAAATACCCCTAATAGATAAAATTACAGAAATACCCTTGA
19804212 CTTTCTA
130 CTTTCTA
** *
19804219 AAAATTA-TAGAAATACCATTGGTTTACAAAATTACTGAAATACC-CTTGGTTTGT-AGATTTAC
1 AAAATTACTA-AAATACCATTGGTTTACAAAATTACCAAAATACCAC-TGGTTTGTGA-AATTAC
* *
19804281 CAAAACACCCTTGTAGA-ATG-AAATGACTAAAATACCCCTAATAGGTAAAA
63 CAAAACACCC-T-TA-ATATGAAAATGACCAAAATACCCCTAATAGATAAAA
19804331 GACCGTAAAA
Statistics
Matches: 93, Mismatches: 13, Indels: 12
0.79 0.11 0.10
Matches are distributed among these distances:
136 4 0.04
137 83 0.89
138 1 0.01
139 4 0.04
140 1 0.01
ACGTcount: A:0.43, C:0.17, G:0.09, T:0.31
Consensus pattern (136 bp):
AAAATTACTAAAATACCATTGGTTTACAAAATTACCAAAATACCACTGGTTTGTGAAATTACCAA
AACACCCTTAATATGAAAATGACCAAAATACCCCTAATAGATAAAATTACAGAAATACCCTTGAC
TTTCTA
Found at i:19804370 original size:27 final size:27
Alignment explanation
Indices: 19804324--19804387 Score: 85
Period size: 27 Copynumber: 2.4 Consensus size: 27
19804314 ACCCCTAATA
*
19804324 GGTAAAA-GACCGTAAAACCCCTGTAG
1 GGTAAAATGACCGTAAAACCCCTGCAG
* * *
19804350 GGTAAAGTGACCGTAATACCCCTGCAT
1 GGTAAAATGACCGTAAAACCCCTGCAG
19804377 GGTAAAATGAC
1 GGTAAAATGAC
19804388 GAATATGCCC
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
26 6 0.19
27 26 0.81
ACGTcount: A:0.36, C:0.22, G:0.23, T:0.19
Consensus pattern (27 bp):
GGTAAAATGACCGTAAAACCCCTGCAG
Found at i:19805042 original size:25 final size:25
Alignment explanation
Indices: 19805013--19805060 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
19805003 TTATAATATG
** *
19805013 AAAATGACTGTTTTGCCCCTAGGTA
1 AAAATGACCATTTTACCCCTAGGTA
19805038 AAAATGACCATTTTACCCCTAGG
1 AAAATGACCATTTTACCCCTAGG
19805061 GTTTAATTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.31, C:0.23, G:0.17, T:0.29
Consensus pattern (25 bp):
AAAATGACCATTTTACCCCTAGGTA
Found at i:19805219 original size:25 final size:25
Alignment explanation
Indices: 19805191--19805285 Score: 145
Period size: 25 Copynumber: 3.8 Consensus size: 25
19805181 GAGGAAGTGC
* * * *
19805191 AAAAGAGCTATGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCA
19805216 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
19805241 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
*
19805266 AAAAGGGTTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
19805286 ATTAAAAGAG
Statistics
Matches: 65, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 65 1.00
ACGTcount: A:0.28, C:0.24, G:0.21, T:0.26
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:19805552 original size:31 final size:31
Alignment explanation
Indices: 19805505--19805585 Score: 139
Period size: 31 Copynumber: 2.7 Consensus size: 31
19805495 CGTTTACAGT
19805505 AGGCTTCGG-CCAGTGATATGATTTATGAAA
1 AGGCTTCGGCCCAGTGATATGATTTATGAAA
19805535 AGGCTTCGGCCCAGTGATATGATTTATGAAA
1 AGGCTTCGGCCCAGTGATATGATTTATGAAA
*
19805566 TGGCTTCGGCCCAGT-ATATG
1 AGGCTTCGGCCCAGTGATATG
19805586 TCGAGACTGA
Statistics
Matches: 49, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
30 14 0.29
31 35 0.71
ACGTcount: A:0.26, C:0.17, G:0.27, T:0.30
Consensus pattern (31 bp):
AGGCTTCGGCCCAGTGATATGATTTATGAAA
Found at i:19806910 original size:2 final size:2
Alignment explanation
Indices: 19806903--19806942 Score: 80
Period size: 2 Copynumber: 20.0 Consensus size: 2
19806893 ATTAACATGG
19806903 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19806943 GTGTGTGAAT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19810394 original size:50 final size:50
Alignment explanation
Indices: 19810318--19810462 Score: 209
Period size: 50 Copynumber: 2.9 Consensus size: 50
19810308 GATAAATAGC
* *
19810318 CACTTTGTGGACAAGCCACCACTAATATGCAGATATACTATCACTAATAA
1 CACTTTGTGGACAAGCCACCACTAATATGCAAATATACTACCACTAATAA
* * * *
19810368 TACTTTATGGCCAAGCCACCACTAATATGCAAATATACTACCACTGATAA
1 CACTTTGTGGACAAGCCACCACTAATATGCAAATATACTACCACTAATAA
* * *
19810418 CACTTTGTGGACAAGCCACCACTGATATGCAAATATGCTGCCACT
1 CACTTTGTGGACAAGCCACCACTAATATGCAAATATACTACCACT
19810463 TACTTCCACC
Statistics
Matches: 83, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
50 83 1.00
ACGTcount: A:0.35, C:0.26, G:0.13, T:0.26
Consensus pattern (50 bp):
CACTTTGTGGACAAGCCACCACTAATATGCAAATATACTACCACTAATAA
Found at i:19811668 original size:45 final size:47
Alignment explanation
Indices: 19811592--19811687 Score: 106
Period size: 45 Copynumber: 2.1 Consensus size: 47
19811582 CATTTTGACC
**
19811592 TACTAAATATTTAAATAAATTATCTAGTATTTATTATAAATTATTTA
1 TACTAAATATTTAAATAAATTATAAAGTATTTATTATAAATTATTTA
* * * * **
19811639 TACT-AAT-TTTAACTAAATTATAAATTATTTGTTGTTTATTATTTA
1 TACTAAATATTTAAATAAATTATAAAGTATTTATTATAAATTATTTA
19811684 TACT
1 TACT
19811688 TGGCCAAGTA
Statistics
Matches: 41, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
45 34 0.83
46 3 0.07
47 4 0.10
ACGTcount: A:0.40, C:0.05, G:0.03, T:0.52
Consensus pattern (47 bp):
TACTAAATATTTAAATAAATTATAAAGTATTTATTATAAATTATTTA
Found at i:19818071 original size:49 final size:49
Alignment explanation
Indices: 19817975--19818072 Score: 115
Period size: 49 Copynumber: 2.0 Consensus size: 49
19817965 CATCTACTTA
* * ** * * * *
19817975 AAGGTTGAAAAACCTTATTATAATCAAAGTTTAATAGATGAAGTTTAGT
1 AAGGTTGAAAAACCTTAGTATAATCAAAATAAAAGAAAAGAAATTTAGT
*
19818024 AAGGTTGAAAAACCTTAGTCTAATCAAAATAAAAGAAAAGAAATTTAGT
1 AAGGTTGAAAAACCTTAGTATAATCAAAATAAAAGAAAAGAAATTTAGT
19818073 TCTATGTGGA
Statistics
Matches: 40, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
49 40 1.00
ACGTcount: A:0.48, C:0.07, G:0.15, T:0.30
Consensus pattern (49 bp):
AAGGTTGAAAAACCTTAGTATAATCAAAATAAAAGAAAAGAAATTTAGT
Found at i:19822438 original size:49 final size:49
Alignment explanation
Indices: 19822342--19822439 Score: 117
Period size: 49 Copynumber: 2.0 Consensus size: 49
19822332 CATCTATTTA
* ** * * *
19822342 AAGGTTGAAAAACCTTATTCTAATCAATGCCAAATAGATAAAGTGTAGT
1 AAGGCTGAAAAACCTTATTCTAATCAAAACAAAATAGAAAAAATGTAGT
*
19822391 AAGGCTGAAAAACCTTATTCTAATCAAAATAAAATA-AAAGAAATGTAGT
1 AAGGCTGAAAAACCTTATTCTAATCAAAACAAAATAGAAA-AAATGTAGT
19822440 TCTATATAGA
Statistics
Matches: 41, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
48 2 0.05
49 39 0.95
ACGTcount: A:0.48, C:0.11, G:0.14, T:0.27
Consensus pattern (49 bp):
AAGGCTGAAAAACCTTATTCTAATCAAAACAAAATAGAAAAAATGTAGT
Found at i:19827816 original size:279 final size:277
Alignment explanation
Indices: 19827313--19827822 Score: 638
Period size: 279 Copynumber: 1.8 Consensus size: 277
19827303 ACTCAATTAA
* * * *
19827313 TAAAATTACAAAAATATCTTTTCATATTTAAAATAAATTATATTGTTCGAGGGTATTTTAATCTT
1 TAAAATTACAAAAATATCCTTTCATATTTAAAATAAATTATATTATTCGAGAGTACTTTAATCTT
* * **
19827378 TTTATTTAAAAAAAAAACTTATGGTGGGATTTAAGCCCACCACCAATGTGTAAAACCTTAAATTT
66 TTTATTAAAAAAAAAAACTTATGGTGGGATTTAAGACCACCACCAATACGTAAAACCTTAAATTT
* * * *
19827443 ACCATAAAAGTTTTATTTTAAAATTATTTATGCATTTTAATTTTATTATTCGCACTTTATTACCT
131 ACCATAAAAGTTTTATGTTAAAATTATTTATACATCTTAATTTTATTATGCGCACTTTATTACCT
*
19827508 CCAACAATTGTATATTTATACTTACTATTATTTAAGCCACTAATTAAGTTAGTGTTTTGAGTCAA
196 CCAACAATTGTATATCTATA--TACTATTATTTAAGCCACTAATTAAGTTAGTGTTTTGAGTCAA
19827573 CCGTGACTCATTCGGTTAG
259 CCGTGACTCATTCGGTTAG
* * * * *
19827592 TAAAATTATAAAAATATCCTTTCGTGTTTAAAATAAGTTATATTATTCGAGAGTACTTTAGTCTT
1 TAAAATTACAAAAATATCCTTTCATATTTAAAATAAATTATATTATTCGAGAGTACTTTAATCTT
* * *
19827657 TTTATCTAAAAAAAAAAACTTATGGTGGGATTTGAA-ACCA-CATCAATACGTGAAACTTTAAAT
66 TTTAT-TAAAAAAAAAAACTTATGGTGGGATTT-AAGACCACCACCAATACGTAAAACCTTAAAT
* * *
19827720 TTATCATTCAATCAAAGTTTTATGTT-GAATTATTTATATATCTTAATTTTATTATGCAG-ACTT
129 TTA-C---C-ATAAAAGTTTTATGTTAAAATTATTTATACATCTTAATTTTATTATGC-GCACTT
* *
19827783 TATTACC-CACATCAGTTGTATATCTA-A-ACTATTATTTAAG
188 TATTACCTC-CAACAATTGTATATCTATATACTATTATTTAAG
19827823 ATACTATCAC
Statistics
Matches: 196, Mismatches: 26, Indels: 18
0.82 0.11 0.08
Matches are distributed among these distances:
279 95 0.48
280 30 0.15
281 2 0.01
282 2 0.01
283 52 0.27
284 15 0.08
ACGTcount: A:0.36, C:0.13, G:0.10, T:0.41
Consensus pattern (277 bp):
TAAAATTACAAAAATATCCTTTCATATTTAAAATAAATTATATTATTCGAGAGTACTTTAATCTT
TTTATTAAAAAAAAAAACTTATGGTGGGATTTAAGACCACCACCAATACGTAAAACCTTAAATTT
ACCATAAAAGTTTTATGTTAAAATTATTTATACATCTTAATTTTATTATGCGCACTTTATTACCT
CCAACAATTGTATATCTATATACTATTATTTAAGCCACTAATTAAGTTAGTGTTTTGAGTCAACC
GTGACTCATTCGGTTAG
Found at i:19828063 original size:25 final size:26
Alignment explanation
Indices: 19828035--19828096 Score: 74
Period size: 25 Copynumber: 2.5 Consensus size: 26
19828025 ATTTTTTCTC
*
19828035 TCCCAGTTAAACATAT-TTTTTAGTT
1 TCCCACTTAAACATATGTTTTTAGTT
* *
19828060 TCCCACTTAAA-TTCTGTTTTTAGTT
1 TCCCACTTAAACATATGTTTTTAGTT
*
19828085 TCACACTTAAAC
1 TCCCACTTAAAC
19828097 TTTGATTTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
24 2 0.06
25 29 0.94
ACGTcount: A:0.27, C:0.21, G:0.06, T:0.45
Consensus pattern (26 bp):
TCCCACTTAAACATATGTTTTTAGTT
Found at i:19828663 original size:16 final size:15
Alignment explanation
Indices: 19828642--19828675 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
19828632 TTAAAGATAA
*
19828642 TTTAAAAATATATTTT
1 TTTAAAAAGAT-TTTT
19828658 TTTAAAAAGATTTTT
1 TTTAAAAAGATTTTT
19828673 TTT
1 TTT
19828676 CACTCATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 7 0.41
16 10 0.59
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (15 bp):
TTTAAAAAGATTTTT
Found at i:19831229 original size:29 final size:29
Alignment explanation
Indices: 19831196--19831254 Score: 118
Period size: 29 Copynumber: 2.0 Consensus size: 29
19831186 TATATTTTAG
19831196 TAAGAATATAAAAAATAATTTATTATAAC
1 TAAGAATATAAAAAATAATTTATTATAAC
19831225 TAAGAATATAAAAAATAATTTATTATAAC
1 TAAGAATATAAAAAATAATTTATTATAAC
19831254 T
1 T
19831255 TGTTAATGTT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.58, C:0.03, G:0.03, T:0.36
Consensus pattern (29 bp):
TAAGAATATAAAAAATAATTTATTATAAC
Found at i:19836858 original size:5 final size:5
Alignment explanation
Indices: 19836848--19836872 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
19836838 TCACTTAGTC
19836848 TTTTA TTTTA TTTTA TTTTA TTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA
19836873 CTTAATTCTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.20, C:0.00, G:0.00, T:0.80
Consensus pattern (5 bp):
TTTTA
Found at i:19838516 original size:9 final size:9
Alignment explanation
Indices: 19838502--19838569 Score: 82
Period size: 9 Copynumber: 7.6 Consensus size: 9
19838492 ATAAGTATAA
19838502 AATTAACCG
1 AATTAACCG
*
19838511 AATTAATCG
1 AATTAACCG
*
19838520 AATTAACTG
1 AATTAACCG
**
19838529 AATTAATTG
1 AATTAACCG
* *
19838538 AATTACCCA
1 AATTAACCG
19838547 AATTAACCG
1 AATTAACCG
19838556 AATTAACCG
1 AATTAACCG
19838565 AATTA
1 AATTA
19838570 TTTGTATAAA
Statistics
Matches: 49, Mismatches: 10, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
9 49 1.00
ACGTcount: A:0.46, C:0.16, G:0.09, T:0.29
Consensus pattern (9 bp):
AATTAACCG
Found at i:19838525 original size:18 final size:18
Alignment explanation
Indices: 19838502--19838569 Score: 91
Period size: 18 Copynumber: 3.8 Consensus size: 18
19838492 ATAAGTATAA
19838502 AATTAACCGAATTAATCG
1 AATTAACCGAATTAATCG
* *
19838520 AATTAACTGAATTAATTG
1 AATTAACCGAATTAATCG
* * *
19838538 AATTACCCAAATTAACCG
1 AATTAACCGAATTAATCG
19838556 AATTAACCGAATTA
1 AATTAACCGAATTA
19838570 TTTGTATAAA
Statistics
Matches: 41, Mismatches: 9, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
18 41 1.00
ACGTcount: A:0.46, C:0.16, G:0.09, T:0.29
Consensus pattern (18 bp):
AATTAACCGAATTAATCG
Found at i:19838651 original size:13 final size:13
Alignment explanation
Indices: 19838633--19838666 Score: 68
Period size: 13 Copynumber: 2.6 Consensus size: 13
19838623 AATTTTTCTG
19838633 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
19838646 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
19838659 ATTGGGTT
1 ATTGGGTT
19838667 AGGTTGGGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.15, C:0.00, G:0.44, T:0.41
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:19840291 original size:13 final size:13
Alignment explanation
Indices: 19840273--19840311 Score: 60
Period size: 13 Copynumber: 3.0 Consensus size: 13
19840263 GCTCGACAGG
19840273 GACACGCCCGTGT
1 GACACGCCCGTGT
*
19840286 GACACGCTCGTGT
1 GACACGCCCGTGT
*
19840299 GATACGCCCGTGT
1 GACACGCCCGTGT
19840312 ACGATAGCTT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.15, C:0.33, G:0.31, T:0.21
Consensus pattern (13 bp):
GACACGCCCGTGT
Found at i:19842324 original size:25 final size:25
Alignment explanation
Indices: 19842294--19842350 Score: 73
Period size: 25 Copynumber: 2.3 Consensus size: 25
19842284 ATAAAACCTA
*
19842294 AAAATAAATAGTA-TTGAAAGGAAAT
1 AAAATAAAAAGTACTTGAAA-GAAAT
*
19842319 AAAATAAAAAGTACTTTAAAGAAAT
1 AAAATAAAAAGTACTTGAAAGAAAT
19842344 -AAATAAA
1 AAAATAAA
19842351 GATAAAAATA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
24 7 0.24
25 17 0.59
26 5 0.17
ACGTcount: A:0.65, C:0.02, G:0.11, T:0.23
Consensus pattern (25 bp):
AAAATAAAAAGTACTTGAAAGAAAT
Found at i:19849670 original size:25 final size:25
Alignment explanation
Indices: 19849629--19849700 Score: 74
Period size: 25 Copynumber: 2.9 Consensus size: 25
19849619 TATGCCCATA
* *
19849629 CGAG-CATGTAAATGGGAAGCTCTTT
1 CGAGCCATGT-AACGGGAAGCTCTTG
19849654 CGAGCCATGTAACGGGAAGCTCTTG
1 CGAGCCATGTAACGGGAAGCTCTTG
* ** *
19849679 CCAGCCAAATATCGGGAAGCTC
1 CGAGCCATGTAACGGGAAGCTC
19849701 AAGAGCGCCA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
25 35 0.88
26 5 0.12
ACGTcount: A:0.28, C:0.24, G:0.28, T:0.21
Consensus pattern (25 bp):
CGAGCCATGTAACGGGAAGCTCTTG
Found at i:19849710 original size:25 final size:25
Alignment explanation
Indices: 19849681--19849750 Score: 70
Period size: 25 Copynumber: 2.8 Consensus size: 25
19849671 AGCTCTTGCC
19849681 AGCCAAATATCGGGAAGCTCAAGAG
1 AGCCAAATATCGGGAAGCTCAAGAG
* * * *
19849706 CGCC-ATTAATCGGGAAGCTTATGAG
1 AGCCAAAT-ATCGGGAAGCTCAAGAG
* *
19849731 AGCTAAATATCAGGAAGCTC
1 AGCCAAATATCGGGAAGCTC
19849751 CTGGGAGCCA
Statistics
Matches: 34, Mismatches: 9, Indels: 4
0.72 0.19 0.09
Matches are distributed among these distances:
24 2 0.06
25 30 0.88
26 2 0.06
ACGTcount: A:0.36, C:0.20, G:0.26, T:0.19
Consensus pattern (25 bp):
AGCCAAATATCGGGAAGCTCAAGAG
Found at i:19849761 original size:50 final size:50
Alignment explanation
Indices: 19849655--19849750 Score: 115
Period size: 50 Copynumber: 1.9 Consensus size: 50
19849645 AAGCTCTTTC
* *
19849655 GAGCCATGTAACGGGAAGCTCTTGCCAGCCAAATATCGGGAAGCTCAAGA
1 GAGCCATGTAACGGGAAGCTCTTGACAGCCAAATATCAGGAAGCTCAAGA
* * *
19849705 GCGCCAT-TAATCGGGAAGCT-TATGAGAGCTAAATATCAGGAAGCTC
1 GAGCCATGTAA-CGGGAAGCTCT-TGACAGCCAAATATCAGGAAGCTC
19849751 CTGGGAGCCA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
49 4 0.10
50 35 0.90
ACGTcount: A:0.32, C:0.22, G:0.27, T:0.19
Consensus pattern (50 bp):
GAGCCATGTAACGGGAAGCTCTTGACAGCCAAATATCAGGAAGCTCAAGA
Found at i:19856627 original size:2 final size:2
Alignment explanation
Indices: 19856584--19856617 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
19856574 ATGATAAGCC
19856584 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
19856618 CAAAATATAT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19859257 original size:90 final size:89
Alignment explanation
Indices: 19859030--19859257 Score: 271
Period size: 90 Copynumber: 2.5 Consensus size: 89
19859020 GTGGAACGTT
* * * *
19859030 CCATTGCTTCTCACCACCTTGCAAGATGGAGTACAAGGGAGATGTGCAAGCCTAATCTAGAACCT
1 CCATTGCTTCTCGCCACCTCG-AAGATGGAGTACAAGGGAGATGTGCGAGCCTAACCTAGAACCT
*
19859095 AACCCTCCTCTCGAGGTGAAAAGCC
65 AACCCTCCTCACGAGGTGAAAAGCC
* * * * ** * *
19859120 CTATTGATTCTCGCCATCTCATAAGATGGAGTACGTGGGAGATGTGCGAGCCTGACCTGGAATCC
1 CCATTGCTTCTCGCCACCTC-GAAGATGGAGTACAAGGGAGATGTGCGAGCCTAACCTAGAA-CC
19859185 -AACCCTCCTCACGAGGTGAAACA-CC
64 TAACCCTCCTCACGAGGTGAAA-AGCC
*
19859210 CCATCGCTTCTCGCCACCTCGAGAGATGGAGTACAAGGGAGATGTGCG
1 CCATTGCTTCTCGCCACCTCGA-AGATGGAGTACAAGGGAGATGTGCG
19859258 TGCTGCAAGA
Statistics
Matches: 114, Mismatches: 20, Indels: 8
0.80 0.14 0.06
Matches are distributed among these distances:
89 1 0.01
90 110 0.96
91 3 0.03
ACGTcount: A:0.26, C:0.28, G:0.25, T:0.21
Consensus pattern (89 bp):
CCATTGCTTCTCGCCACCTCGAAGATGGAGTACAAGGGAGATGTGCGAGCCTAACCTAGAACCTA
ACCCTCCTCACGAGGTGAAAAGCC
Found at i:19860291 original size:17 final size:18
Alignment explanation
Indices: 19860271--19860331 Score: 66
Period size: 18 Copynumber: 3.8 Consensus size: 18
19860261 CAAAACCCGA
19860271 AGCCC-AACTAAACCATC
1 AGCCCAAACTAAACCATC
19860288 AGCCCAAACT-AA--A-C
1 AGCCCAAACTAAACCATC
19860302 --CCC-AACTAAACCATC
1 AGCCCAAACTAAACCATC
19860317 AGCCCAAACTAAACC
1 AGCCCAAACTAAACC
19860332 CAATCCCAAC
Statistics
Matches: 36, Mismatches: 0, Indels: 15
0.71 0.00 0.29
Matches are distributed among these distances:
11 4 0.11
12 5 0.14
14 2 0.06
15 2 0.06
17 10 0.28
18 13 0.36
ACGTcount: A:0.44, C:0.41, G:0.05, T:0.10
Consensus pattern (18 bp):
AGCCCAAACTAAACCATC
Found at i:19860307 original size:29 final size:29
Alignment explanation
Indices: 19860273--19860332 Score: 120
Period size: 29 Copynumber: 2.1 Consensus size: 29
19860263 AAACCCGAAG
19860273 CCCAACTAAACCATCAGCCCAAACTAAAC
1 CCCAACTAAACCATCAGCCCAAACTAAAC
19860302 CCCAACTAAACCATCAGCCCAAACTAAAC
1 CCCAACTAAACCATCAGCCCAAACTAAAC
19860331 CC
1 CC
19860333 AATCCCAACC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.43, C:0.43, G:0.03, T:0.10
Consensus pattern (29 bp):
CCCAACTAAACCATCAGCCCAAACTAAAC
Found at i:19862214 original size:19 final size:20
Alignment explanation
Indices: 19862164--19862207 Score: 56
Period size: 19 Copynumber: 2.3 Consensus size: 20
19862154 AAATAGATAT
*
19862164 TTATT-TAAATATTAAATTA
1 TTATTATAATTATTAAATTA
*
19862183 TTGTTATAATTATT-AATTA
1 TTATTATAATTATTAAATTA
19862202 TTATTA
1 TTATTA
19862208 ATATTATATT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (20 bp):
TTATTATAATTATTAAATTA
Found at i:19863685 original size:45 final size:45
Alignment explanation
Indices: 19863634--19863784 Score: 207
Period size: 45 Copynumber: 3.4 Consensus size: 45
19863624 CGACTACTGT
* *
19863634 TACTGTTACCGTTACTTTTACCGATTCGACACTTTGTGTGTCGAA
1 TACTGTTACTGTTACTATTACCGATTCGACACTTTGTGTGTCGAA
19863679 TACTGTTACTGTTA-TCATTACCGATTCGACACTTTGTGTGTCGAA
1 TACTGTTACTGTTACT-ATTACCGATTCGACACTTTGTGTGTCGAA
* ** * *
19863724 TACTGTTACTTTTACCGTTACCGATTC-AGCACTTTGTTTGTTGAA
1 TACTGTTACTGTTACTATTACCGATTCGA-CACTTTGTGTGTCGAA
19863769 TACTGTTACTGTTACT
1 TACTGTTACTGTTACT
19863785 GTTTCGAATT
Statistics
Matches: 94, Mismatches: 9, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
44 2 0.02
45 92 0.98
ACGTcount: A:0.21, C:0.21, G:0.17, T:0.42
Consensus pattern (45 bp):
TACTGTTACTGTTACTATTACCGATTCGACACTTTGTGTGTCGAA
Found at i:19864091 original size:18 final size:18
Alignment explanation
Indices: 19864037--19864123 Score: 61
Period size: 18 Copynumber: 4.9 Consensus size: 18
19864027 ATAACCGATC
*
19864037 AATTGATTGATACTGAAT
1 AATTGATTGTTACTGAAT
* * * *
19864055 AACTGATTATTATTTAAT
1 AATTGATTGTTACTGAAT
*
19864073 AATTGATTGTTACCGAAT
1 AATTGATTGTTACTGAAT
* *
19864091 AACTGACTAG-TACTGAAT
1 AATTGA-TTGTTACTGAAT
* *
19864109 AAATAATTGTT-CTGA
1 AATTGATTGTTACTGA
19864124 TTGATTAATT
Statistics
Matches: 51, Mismatches: 16, Indels: 5
0.71 0.22 0.07
Matches are distributed among these distances:
17 6 0.12
18 43 0.84
19 2 0.04
ACGTcount: A:0.38, C:0.09, G:0.14, T:0.39
Consensus pattern (18 bp):
AATTGATTGTTACTGAAT
Found at i:19864110 original size:36 final size:36
Alignment explanation
Indices: 19864037--19864119 Score: 94
Period size: 36 Copynumber: 2.3 Consensus size: 36
19864027 ATAACCGATC
* * * * * *
19864037 AATTGATTGATACTGAATAACTGATTATTATTTAAT
1 AATTGATTGTTACCGAATAACTGACTAGTACTGAAT
19864073 AATTGATTGTTACCGAATAACTGACTAGTACTGAAT
1 AATTGATTGTTACCGAATAACTGACTAGTACTGAAT
* *
19864109 AAATAATTGTT
1 AATTGATTGTT
19864120 CTGATTGATT
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.39, C:0.08, G:0.13, T:0.40
Consensus pattern (36 bp):
AATTGATTGTTACCGAATAACTGACTAGTACTGAAT
Found at i:19864595 original size:42 final size:42
Alignment explanation
Indices: 19864455--19864595 Score: 124
Period size: 47 Copynumber: 3.1 Consensus size: 42
19864445 AGGTTGTGAA
19864455 AGTATTGATGAAATAAGTAAATTATGGTTGACAATGGTGTAT
1 AGTATTGATGAAATAAGTAAATTATGGTTGACAATGGTGTAT
* * * *
19864497 AGTA-TGAAGTTGAAATAATTGATAAAGTAAGTGATGACATCTAGGT-TAT
1 AGTATTG-A--TGAAATAA--G-TAAATTATG-GTTGACA-AT-GGTGTAT
19864546 GAAAGTATTGATGAAATAAGTAAATTATGGTTGACAATGGTGTAT
1 ---AGTATTGATGAAATAAGTAAATTATGGTTGACAATGGTGTAT
19864591 AGTAT
1 AGTAT
19864596 GAAGTTGAAA
Statistics
Matches: 77, Mismatches: 8, Indels: 28
0.68 0.07 0.25
Matches are distributed among these distances:
41 2 0.03
42 10 0.13
44 11 0.14
45 4 0.05
46 7 0.09
47 14 0.18
48 7 0.09
49 4 0.05
50 11 0.14
52 5 0.06
53 2 0.03
ACGTcount: A:0.40, C:0.03, G:0.23, T:0.34
Consensus pattern (42 bp):
AGTATTGATGAAATAAGTAAATTATGGTTGACAATGGTGTAT
Found at i:19864601 original size:94 final size:94
Alignment explanation
Indices: 19864440--19864625 Score: 363
Period size: 94 Copynumber: 2.0 Consensus size: 94
19864430 TTATGAGAGT
*
19864440 CATCTAGGTTGTGAAAGTATTGATGAAATAAGTAAATTATGGTTGACAATGGTGTATAGTATGAA
1 CATCTAGGTTATGAAAGTATTGATGAAATAAGTAAATTATGGTTGACAATGGTGTATAGTATGAA
19864505 GTTGAAATAATTGATAAAGTAAGTGATGA
66 GTTGAAATAATTGATAAAGTAAGTGATGA
19864534 CATCTAGGTTATGAAAGTATTGATGAAATAAGTAAATTATGGTTGACAATGGTGTATAGTATGAA
1 CATCTAGGTTATGAAAGTATTGATGAAATAAGTAAATTATGGTTGACAATGGTGTATAGTATGAA
19864599 GTTGAAATAATTGATAAAGTAAGTGAT
66 GTTGAAATAATTGATAAAGTAAGTGAT
19864626 ATACTTAAAA
Statistics
Matches: 91, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
94 91 1.00
ACGTcount: A:0.40, C:0.03, G:0.24, T:0.33
Consensus pattern (94 bp):
CATCTAGGTTATGAAAGTATTGATGAAATAAGTAAATTATGGTTGACAATGGTGTATAGTATGAA
GTTGAAATAATTGATAAAGTAAGTGATGA
Found at i:19864957 original size:3 final size:3
Alignment explanation
Indices: 19864949--19864995 Score: 94
Period size: 3 Copynumber: 15.7 Consensus size: 3
19864939 TTTCTTTCCT
19864949 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
19864996 TTTAGCCGTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 44 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TTA
Found at i:19870938 original size:2 final size:2
Alignment explanation
Indices: 19870876--19870918 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
19870866 TCCTTATGTT
19870876 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19870918 T
1 T
19870919 TACTTATATA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:19873624 original size:31 final size:30
Alignment explanation
Indices: 19873560--19873631 Score: 81
Period size: 31 Copynumber: 2.4 Consensus size: 30
19873550 TTGACATATC
* * *
19873560 AACTTTGATTTGGTATAATTATACATATGA
1 AACTTTGATTTAGTATAAATATACAAATGA
* *
19873590 AACTTTGATTGTAGTTTAAATATATAAATGA
1 AACTTTGATT-TAGTATAAATATACAAATGA
*
19873621 AACTTTAATTT
1 AACTTTGATTT
19873632 TGATTTAATT
Statistics
Matches: 35, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
30 11 0.31
31 24 0.69
ACGTcount: A:0.39, C:0.06, G:0.11, T:0.44
Consensus pattern (30 bp):
AACTTTGATTTAGTATAAATATACAAATGA
Found at i:19874889 original size:41 final size:41
Alignment explanation
Indices: 19874832--19874915 Score: 159
Period size: 41 Copynumber: 2.0 Consensus size: 41
19874822 TAAAAGAGAC
*
19874832 ATATTTTTGAAATCTTTGAAATAAACAACTTAAATGAGATG
1 ATATTTTTAAAATCTTTGAAATAAACAACTTAAATGAGATG
19874873 ATATTTTTAAAATCTTTGAAATAAACAACTTAAATGAGATG
1 ATATTTTTAAAATCTTTGAAATAAACAACTTAAATGAGATG
19874914 AT
1 AT
19874916 GAAAGTTTAA
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.45, C:0.07, G:0.11, T:0.37
Consensus pattern (41 bp):
ATATTTTTAAAATCTTTGAAATAAACAACTTAAATGAGATG
Found at i:19877664 original size:25 final size:25
Alignment explanation
Indices: 19877626--19877676 Score: 93
Period size: 25 Copynumber: 2.0 Consensus size: 25
19877616 ACTTCATTTT
19877626 AGAGGACCGAAACAAAGAAACAATG
1 AGAGGACCGAAACAAAGAAACAATG
*
19877651 AGAGGACCGTAACAAAGAAACAATG
1 AGAGGACCGAAACAAAGAAACAATG
19877676 A
1 A
19877677 CAATAATTGA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.55, C:0.16, G:0.24, T:0.06
Consensus pattern (25 bp):
AGAGGACCGAAACAAAGAAACAATG
Found at i:19878184 original size:21 final size:21
Alignment explanation
Indices: 19878160--19878201 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
19878150 ATATATAAAG
*
19878160 TTAATGTATTTGTTACTTTTT
1 TTAAGGTATTTGTTACTTTTT
19878181 TTAAGGTATTTGTTACTTTTT
1 TTAAGGTATTTGTTACTTTTT
19878202 ATTCTTTGTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.19, C:0.05, G:0.12, T:0.64
Consensus pattern (21 bp):
TTAAGGTATTTGTTACTTTTT
Found at i:19878383 original size:15 final size:17
Alignment explanation
Indices: 19878353--19878385 Score: 52
Period size: 15 Copynumber: 2.1 Consensus size: 17
19878343 GTCCCCATAC
19878353 TATTAATAATTTTTAAT
1 TATTAATAATTTTTAAT
19878370 TATTAA-AA-TTTTAAT
1 TATTAATAATTTTTAAT
19878385 T
1 T
19878386 CCTAAATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 2 0.12
17 6 0.38
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (17 bp):
TATTAATAATTTTTAAT
Found at i:19882138 original size:25 final size:24
Alignment explanation
Indices: 19882076--19882138 Score: 72
Period size: 25 Copynumber: 2.5 Consensus size: 24
19882066 AAGCAAGCCA
*
19882076 TATCGGGAAGCTCCGAAGAGCCTT
1 TATCGGGAAGCTCCGAAAAGCCTT
* *
19882100 TAAACGAGAAGCTCCGAAAAGCCATT
1 T-ATCGGGAAGCTCCGAAAAGCC-TT
*
19882126 TATCGGGACGCTC
1 TATCGGGAAGCTC
19882139 ATAAGACCTG
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
24 1 0.03
25 27 0.87
26 3 0.10
ACGTcount: A:0.30, C:0.25, G:0.25, T:0.19
Consensus pattern (24 bp):
TATCGGGAAGCTCCGAAAAGCCTT
Found at i:19883584 original size:9 final size:10
Alignment explanation
Indices: 19883560--19883593 Score: 52
Period size: 10 Copynumber: 3.5 Consensus size: 10
19883550 GAAACAAAAC
19883560 AGAAAAATTT
1 AGAAAAATTT
19883570 AGAAAAATTT
1 AGAAAAATTT
*
19883580 A-AAAATTTT
1 AGAAAAATTT
19883589 AGAAA
1 AGAAA
19883594 CATGGGTCAC
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
9 8 0.36
10 14 0.64
ACGTcount: A:0.62, C:0.00, G:0.09, T:0.29
Consensus pattern (10 bp):
AGAAAAATTT
Found at i:19886240 original size:13 final size:11
Alignment explanation
Indices: 19886204--19886295 Score: 96
Period size: 11 Copynumber: 8.0 Consensus size: 11
19886194 GGTGAAATTA
*
19886204 TTTATTACTAT
1 TTTATTAATAT
*
19886215 TTTAATAATAT
1 TTTATTAATAT
19886226 TTTATTAAGATAT
1 TTTATT-A-ATAT
*
19886239 TTTAATAATAT
1 TTTATTAATAT
19886250 TTTATTAAGATAT
1 TTTATT-A-ATAT
19886263 TTTATTAATAT
1 TTTATTAATAT
*
19886274 TTTATTCATA-
1 TTTATTAATAT
19886284 TTTAGTTAATAT
1 TTTA-TTAATAT
19886296 ACAAGAAAGG
Statistics
Matches: 68, Mismatches: 7, Indels: 11
0.79 0.08 0.13
Matches are distributed among these distances:
10 4 0.06
11 41 0.60
12 4 0.06
13 19 0.28
ACGTcount: A:0.37, C:0.02, G:0.03, T:0.58
Consensus pattern (11 bp):
TTTATTAATAT
Found at i:19886242 original size:24 final size:24
Alignment explanation
Indices: 19886212--19886279 Score: 127
Period size: 24 Copynumber: 2.8 Consensus size: 24
19886202 TATTTATTAC
19886212 TATTTTAATAATATTTTATTAAGA
1 TATTTTAATAATATTTTATTAAGA
19886236 TATTTTAATAATATTTTATTAAGA
1 TATTTTAATAATATTTTATTAAGA
*
19886260 TATTTTATTAATATTTTATT
1 TATTTTAATAATATTTTATT
19886280 CATATTTAGT
Statistics
Matches: 43, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 43 1.00
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (24 bp):
TATTTTAATAATATTTTATTAAGA
Found at i:19886251 original size:35 final size:35
Alignment explanation
Indices: 19886213--19886286 Score: 71
Period size: 35 Copynumber: 2.1 Consensus size: 35
19886203 ATTTATTACT
* *
19886213 ATTTTAATAATATTTTATTAAGATATTTTAATAAT
1 ATTTTAATAATATTTTAATAAGATATTTTATTAAT
* * *
19886248 ATTTTATTAAGATATTTT-ATTA-ATATTTTATTCAT
1 ATTTTAAT-A-ATATTTTAATAAGATATTTTATTAAT
19886283 ATTT
1 ATTT
19886287 AGTTAATATA
Statistics
Matches: 32, Mismatches: 5, Indels: 4
0.78 0.12 0.10
Matches are distributed among these distances:
35 22 0.69
36 3 0.09
37 7 0.22
ACGTcount: A:0.38, C:0.01, G:0.03, T:0.58
Consensus pattern (35 bp):
ATTTTAATAATATTTTAATAAGATATTTTATTAAT
Found at i:19887265 original size:11 final size:11
Alignment explanation
Indices: 19887251--19887370 Score: 96
Period size: 11 Copynumber: 10.8 Consensus size: 11
19887241 AAGTAGCAGT
*
19887251 AAAATAGCACC
1 AAAACAGCACC
*
19887262 AAAACAGCATC
1 AAAACAGCACC
**
19887273 AAAACAATACC
1 AAAACAGCACC
* * *
19887284 AAAATACCATC
1 AAAACAGCACC
*
19887295 AAAACAGCACA
1 AAAACAGCACC
* * *
19887306 AAAATACCATC
1 AAAACAGCACC
*
19887317 AAAATAGCACC
1 AAAACAGCACC
19887328 AAAACAGCACC
1 AAAACAGCACC
* *
19887339 CAAACAGCAAC
1 AAAACAGCACC
*
19887350 AAAACAGCACAA
1 AAAACAGCAC-C
19887362 AAAACAGCA
1 AAAACAGCA
19887371 TCACCAACAA
Statistics
Matches: 83, Mismatches: 25, Indels: 1
0.76 0.23 0.01
Matches are distributed among these distances:
11 74 0.89
12 9 0.11
ACGTcount: A:0.58, C:0.28, G:0.07, T:0.07
Consensus pattern (11 bp):
AAAACAGCACC
Found at i:19887276 original size:22 final size:22
Alignment explanation
Indices: 19887251--19887363 Score: 111
Period size: 22 Copynumber: 5.2 Consensus size: 22
19887241 AAGTAGCAGT
*
19887251 AAAATAGCACCAAAACAGCATC
1 AAAACAGCACCAAAACAGCATC
** * *
19887273 AAAACAATACCAAAATACCATC
1 AAAACAGCACCAAAACAGCATC
* * *
19887295 AAAACAGCACAAAAATACCATC
1 AAAACAGCACCAAAACAGCATC
* *
19887317 AAAATAGCACCAAAACAGCACC
1 AAAACAGCACCAAAACAGCATC
* *
19887339 CAAACAGCAACAAAACAGCA-C
1 AAAACAGCACCAAAACAGCATC
19887360 AAAA
1 AAAA
19887364 AACAGCATCA
Statistics
Matches: 74, Mismatches: 17, Indels: 1
0.80 0.18 0.01
Matches are distributed among these distances:
21 4 0.05
22 70 0.95
ACGTcount: A:0.58, C:0.28, G:0.06, T:0.07
Consensus pattern (22 bp):
AAAACAGCACCAAAACAGCATC
Found at i:19887289 original size:33 final size:33
Alignment explanation
Indices: 19887251--19887388 Score: 127
Period size: 33 Copynumber: 4.1 Consensus size: 33
19887241 AAGTAGCAGT
*
19887251 AAAATAGCACCAAAACAGCATCAAAACAATACC
1 AAAATAGCACCAAAACAGCATCAAAACAACACC
* * *
19887284 AAAATACCATCAAAACAGCA-CAAAA-ATACCATC
1 AAAATAGCACCAAAACAGCATCAAAACA-A-CACC
* * * *
19887317 AAAATAGCACCAAAACAGCACCCAAACAGCAAC
1 AAAATAGCACCAAAACAGCATCAAAACAACACC
* * *
19887350 AAAACAGCACAAAAAACAGCATCACCAACAACACC
1 AAAATAGCAC-CAAAACAGCATCA-AAACAACACC
19887385 AAAA
1 AAAA
19887389 ACCTACAAAA
Statistics
Matches: 83, Mismatches: 16, Indels: 10
0.76 0.15 0.09
Matches are distributed among these distances:
31 1 0.01
32 6 0.07
33 50 0.60
34 14 0.17
35 12 0.14
ACGTcount: A:0.58, C:0.30, G:0.06, T:0.07
Consensus pattern (33 bp):
AAAATAGCACCAAAACAGCATCAAAACAACACC
Found at i:19887545 original size:9 final size:9
Alignment explanation
Indices: 19887531--19887572 Score: 66
Period size: 9 Copynumber: 4.7 Consensus size: 9
19887521 ATCGAAGAAA
19887531 CATCGTCCT
1 CATCGTCCT
19887540 CATCGTCCT
1 CATCGTCCT
*
19887549 CGTCGTCCT
1 CATCGTCCT
*
19887558 CATCATCCT
1 CATCGTCCT
19887567 CATCGT
1 CATCGT
19887573 TCTTGCAACC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.12, C:0.43, G:0.12, T:0.33
Consensus pattern (9 bp):
CATCGTCCT
Found at i:19891304 original size:6 final size:6
Alignment explanation
Indices: 19891288--19891318 Score: 53
Period size: 6 Copynumber: 5.0 Consensus size: 6
19891278 TTCCATTTTA
19891288 TTCTCTT TTCTTT TTCTTT TTCTTT TTCTTT
1 TTCT-TT TTCTTT TTCTTT TTCTTT TTCTTT
19891319 ATATTTCTTC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 20 0.83
7 4 0.17
ACGTcount: A:0.00, C:0.19, G:0.00, T:0.81
Consensus pattern (6 bp):
TTCTTT
Found at i:19892139 original size:42 final size:43
Alignment explanation
Indices: 19892069--19892149 Score: 101
Period size: 42 Copynumber: 1.9 Consensus size: 43
19892059 TTTTAGAACT
* *
19892069 ACACGGGCAGAGGACATAGGTATATGTCCAAGCCGTGTGGTTC
1 ACACGGGCAGAGGAAATAGGCATATGTCCAAGCCGTGTGGTTC
* * * *
19892112 ACACGGGCA-AGGAAATAGGCGTTTGTCCAGGTCGTGTG
1 ACACGGGCAGAGGAAATAGGCATATGTCCAAGCCGTGTG
19892150 AGCCATATGA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
42 23 0.72
43 9 0.28
ACGTcount: A:0.25, C:0.20, G:0.35, T:0.21
Consensus pattern (43 bp):
ACACGGGCAGAGGAAATAGGCATATGTCCAAGCCGTGTGGTTC
Found at i:19892577 original size:26 final size:25
Alignment explanation
Indices: 19892521--19892578 Score: 62
Period size: 26 Copynumber: 2.2 Consensus size: 25
19892511 CCAACAATTA
* * * *
19892521 AAAATTATAAAGTCCATAGAGTCCC
1 AAAATTATAAACTCCATAAAATACC
19892546 AGAAATTATAAACTCTCATAAAATACC
1 A-AAATTATAAACTC-CATAAAATACC
19892573 AAAATT
1 AAAATT
19892579 GTAATTAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
25 1 0.04
26 17 0.63
27 9 0.33
ACGTcount: A:0.50, C:0.17, G:0.07, T:0.26
Consensus pattern (25 bp):
AAAATTATAAACTCCATAAAATACC
Found at i:19896557 original size:4 final size:4
Alignment explanation
Indices: 19896548--19896573 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
19896538 ATAAGTATGC
19896548 GTTG GTTG GTTG GTTG GTTG GTTG GT
1 GTTG GTTG GTTG GTTG GTTG GTTG GT
19896574 ATGTTGTTGA
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:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (4 bp):
GTTG
Found at i:19898822 original size:13 final size:13
Alignment explanation
Indices: 19898804--19898836 Score: 57
Period size: 13 Copynumber: 2.5 Consensus size: 13
19898794 ATATAAGAAA
19898804 ATATTATTATATT
1 ATATTATTATATT
19898817 ATATTATTATATT
1 ATATTATTATATT
19898830 ACTATTA
1 A-TATTA
19898837 CTATTATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 14 0.74
14 5 0.26
ACGTcount: A:0.39, C:0.03, G:0.00, T:0.58
Consensus pattern (13 bp):
ATATTATTATATT
Found at i:19902098 original size:5 final size:5
Alignment explanation
Indices: 19902088--19902126 Score: 78
Period size: 5 Copynumber: 7.8 Consensus size: 5
19902078 AGTGGATGGG
19902088 GATAT GATAT GATAT GATAT GATAT GATAT GATAT GATA
1 GATAT GATAT GATAT GATAT GATAT GATAT GATAT GATA
19902127 ATATATGTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 34 1.00
ACGTcount: A:0.41, C:0.00, G:0.21, T:0.38
Consensus pattern (5 bp):
GATAT
Found at i:19908312 original size:16 final size:16
Alignment explanation
Indices: 19908293--19908328 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
19908283 AACCTAACCC
*
19908293 AAAAAAAAA-ACAAAG
1 AAAAAAAAAGAAAAAG
19908308 AAAAAAAAAGAAAAAG
1 AAAAAAAAAGAAAAAG
19908324 AAAAA
1 AAAAA
19908329 CCTACCAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.89, C:0.03, G:0.08, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAGAAAAAG
Found at i:19908338 original size:16 final size:17
Alignment explanation
Indices: 19908319--19908359 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 17
19908309 AAAAAAAAGA
19908319 AAAAGAAAAACCT-A-CC
1 AAAA-AAAAACCTAACCC
19908335 -AAAAAAAACCTAACCC
1 AAAAAAAAACCTAACCC
19908351 AAAAAAAAA
1 AAAAAAAAA
19908360 AAGAAGAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 5
0.81 0.00 0.19
Matches are distributed among these distances:
14 8 0.36
15 4 0.18
16 2 0.09
17 8 0.36
ACGTcount: A:0.71, C:0.22, G:0.02, T:0.05
Consensus pattern (17 bp):
AAAAAAAAACCTAACCC
Found at i:19908341 original size:14 final size:16
Alignment explanation
Indices: 19908324--19908358 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
19908314 AAAGAAAAAG
19908324 AAAAACCT-A-CCAAA
1 AAAAACCTAACCCAAA
19908338 AAAAACCTAACCCAAA
1 AAAAACCTAACCCAAA
19908354 AAAAA
1 AAAAA
19908359 AAAGAAGAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
14 8 0.42
15 1 0.05
16 10 0.53
ACGTcount: A:0.69, C:0.26, G:0.00, T:0.06
Consensus pattern (16 bp):
AAAAACCTAACCCAAA
Found at i:19910952 original size:12 final size:12
Alignment explanation
Indices: 19910932--19910967 Score: 54
Period size: 12 Copynumber: 3.0 Consensus size: 12
19910922 ATTCATTTAA
19910932 CATTCATGCATT
1 CATTCATGCATT
*
19910944 CATTTATGCATT
1 CATTCATGCATT
*
19910956 CATTCATTCATT
1 CATTCATGCATT
19910968 GCATATTCCA
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.25, C:0.22, G:0.06, T:0.47
Consensus pattern (12 bp):
CATTCATGCATT
Found at i:19921864 original size:26 final size:29
Alignment explanation
Indices: 19921774--19921845 Score: 137
Period size: 29 Copynumber: 2.5 Consensus size: 29
19921764 GTGACGAGAT
19921774 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
19921803 TGGCACTAAGTGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
19921832 TGGCACTAA-TGTGC
1 TGGCACTAAGTGTGC
19921846 AGCTGAAAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
28 5 0.12
29 38 0.88
ACGTcount: A:0.26, C:0.15, G:0.31, T:0.28
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:19930844 original size:39 final size:39
Alignment explanation
Indices: 19930763--19931015 Score: 392
Period size: 39 Copynumber: 6.6 Consensus size: 39
19930753 TATGGTAACC
* * * *
19930763 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCATAGCT
*
19930803 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
19930842 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
*
19930881 CGCACAATTGCCTTCGGGCTTAGCCCGGGTATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
19930920 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
19930959 CGCACAATTGCCTTCGGGCTTAGCCCGG--ATC--A--T
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
*
19930992 CACACAATTGCCTTCGGGCTTAGC
1 CGCACAATTGCCTTCGGGCTTAGC
19931016 ATATCACTCG
Statistics
Matches: 204, Mismatches: 9, Indels: 7
0.93 0.04 0.03
Matches are distributed among these distances:
33 24 0.12
35 1 0.00
37 3 0.01
39 159 0.78
40 17 0.08
ACGTcount: A:0.21, C:0.32, G:0.23, T:0.25
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
Found at i:19938531 original size:20 final size:18
Alignment explanation
Indices: 19938506--19938542 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
19938496 ATTGCTAAGT
19938506 TGTAAAATGAGTTGTAAATG
1 TGTAAAAT-AGTTG-AAATG
19938526 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
19938543 TATGAGTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (18 bp):
TGTAAAATAGTTGAAATG
Found at i:19940441 original size:43 final size:43
Alignment explanation
Indices: 19940377--19940555 Score: 306
Period size: 43 Copynumber: 4.2 Consensus size: 43
19940367 AAGTTCAGTT
*
19940377 TAATGTAA-TGGCACTAAGTGTGCGATATAATTATAGCTTCGGC
1 TAAT-TAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGC
* *
19940420 TAATTAATTGGCACTAAGTGTGCGATATAATTATAGCTTTGGC
1 TAATTAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGC
19940463 TAATTAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGC
1 TAATTAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGC
*
19940506 TAATTAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGT
1 TAATTAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGC
19940549 TAATTAA
1 TAATTAA
19940556 CATTATAAAT
Statistics
Matches: 131, Mismatches: 4, Indels: 2
0.96 0.03 0.01
Matches are distributed among these distances:
42 3 0.02
43 128 0.98
ACGTcount: A:0.31, C:0.13, G:0.21, T:0.35
Consensus pattern (43 bp):
TAATTAATTGGCACTAAGTGTGCGATACAATTATAGCTTCGGC
Found at i:19942971 original size:20 final size:18
Alignment explanation
Indices: 19942946--19942982 Score: 56
Period size: 20 Copynumber: 1.9 Consensus size: 18
19942936 ATTGCTAAGT
19942946 TGTAAAATGAGTTGTAAATG
1 TGTAAAAT-AGTTG-AAATG
19942966 TGTAAAATAGTTGAAAT
1 TGTAAAATAGTTGAAAT
19942983 TATGAGTTGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.24
19 5 0.29
20 8 0.47
ACGTcount: A:0.43, C:0.00, G:0.22, T:0.35
Consensus pattern (18 bp):
TGTAAAATAGTTGAAATG
Found at i:19946141 original size:64 final size:64
Alignment explanation
Indices: 19945958--19946141 Score: 185
Period size: 64 Copynumber: 2.8 Consensus size: 64
19945948 CATAATTTTG
* * * * * *
19945958 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGC--CAGTTTATCTCGT
1 GCTCTCTTGT-CTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACA-TATATCCCAT
19946020 A
64 A
* * * * * *
19946021 GCCCTCTTGTCTACATGGTGTCCTTCACCTGGAACCACGCATGCGACCTAGCTACATATATCCCA
1 GCTCTCTTGTCTACATGGTG---TACACATAGTACCACCCATGCGACCTAGCTACATATATCCCA
19946086 TA
63 TA
*
19946088 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACAT
1 GCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACAT
19946142 CATAATGTCT
Statistics
Matches: 97, Mismatches: 18, Indels: 11
0.77 0.14 0.09
Matches are distributed among these distances:
62 1 0.01
63 17 0.18
64 28 0.29
66 22 0.23
67 27 0.28
68 2 0.02
ACGTcount: A:0.23, C:0.31, G:0.17, T:0.29
Consensus pattern (64 bp):
GCTCTCTTGTCTACATGGTGTACACATAGTACCACCCATGCGACCTAGCTACATATATCCCATA
Found at i:19955444 original size:12 final size:12
Alignment explanation
Indices: 19955427--19955451 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
19955417 TTTTGAAAGT
19955427 TAGTTACACGTG
1 TAGTTACACGTG
19955439 TAGTTACACGTG
1 TAGTTACACGTG
19955451 T
1 T
19955452 CAAGTCCACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.36
Consensus pattern (12 bp):
TAGTTACACGTG
Found at i:19956754 original size:27 final size:27
Alignment explanation
Indices: 19956696--19956756 Score: 79
Period size: 27 Copynumber: 2.3 Consensus size: 27
19956686 CTGATGAATT
* **
19956696 TTGAAGAGATAGTATGTGTGGCGAACA
1 TTGAAGGGATAGTATGAATGGCGAACA
19956723 TTGAAGGGATAGTATGAATGGCGAAC-
1 TTGAAGGGATAGTATGAATGGCGAACA
19956749 TCTGAAGG
1 T-TGAAGG
19956757 AACGATAGGT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
26 1 0.03
27 29 0.97
ACGTcount: A:0.33, C:0.08, G:0.34, T:0.25
Consensus pattern (27 bp):
TTGAAGGGATAGTATGAATGGCGAACA
Found at i:19976718 original size:18 final size:18
Alignment explanation
Indices: 19976695--19976739 Score: 90
Period size: 18 Copynumber: 2.5 Consensus size: 18
19976685 TATTGCTATA
19976695 AGGATTGTTTTGAGATCG
1 AGGATTGTTTTGAGATCG
19976713 AGGATTGTTTTGAGATCG
1 AGGATTGTTTTGAGATCG
19976731 AGGATTGTT
1 AGGATTGTT
19976740 ACCCATGTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 27 1.00
ACGTcount: A:0.22, C:0.04, G:0.33, T:0.40
Consensus pattern (18 bp):
AGGATTGTTTTGAGATCG
Found at i:19981944 original size:9 final size:9
Alignment explanation
Indices: 19981930--19981972 Score: 86
Period size: 9 Copynumber: 4.8 Consensus size: 9
19981920 CTAAATGCAT
19981930 GTTGAAGTA
1 GTTGAAGTA
19981939 GTTGAAGTA
1 GTTGAAGTA
19981948 GTTGAAGTA
1 GTTGAAGTA
19981957 GTTGAAGTA
1 GTTGAAGTA
19981966 GTTGAAG
1 GTTGAAG
19981973 AATGGGTTCT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 34 1.00
ACGTcount: A:0.33, C:0.00, G:0.35, T:0.33
Consensus pattern (9 bp):
GTTGAAGTA
Found at i:20004681 original size:15 final size:15
Alignment explanation
Indices: 20004661--20004690 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
20004651 CCAGTATATT
20004661 ATTTTATTTCACTTA
1 ATTTTATTTCACTTA
20004676 ATTTTATTTCACTTA
1 ATTTTATTTCACTTA
20004691 GCCTGCCTCC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.13, G:0.00, T:0.60
Consensus pattern (15 bp):
ATTTTATTTCACTTA
Found at i:20010500 original size:15 final size:14
Alignment explanation
Indices: 20010481--20010517 Score: 56
Period size: 15 Copynumber: 2.6 Consensus size: 14
20010471 AACCTAACCC
20010481 AAAAAAAAAAACAA
1 AAAAAAAAAAACAA
*
20010495 AGAAAAAAAAAAGAA
1 A-AAAAAAAAAACAA
20010510 AAAAAAAA
1 AAAAAAAA
20010518 CCTACCAAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 8 0.38
15 13 0.62
ACGTcount: A:0.92, C:0.03, G:0.05, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAAACAA
Found at i:20010502 original size:11 final size:11
Alignment explanation
Indices: 20010481--20010517 Score: 58
Period size: 11 Copynumber: 3.5 Consensus size: 11
20010471 AACCTAACCC
20010481 AAAAA-AAAAA
1 AAAAAGAAAAA
*
20010491 ACAAAGAAAAA
1 AAAAAGAAAAA
20010502 AAAAAGAAAAA
1 AAAAAGAAAAA
20010513 AAAAA
1 AAAAA
20010518 CCTACCAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
10 4 0.17
11 20 0.83
ACGTcount: A:0.92, C:0.03, G:0.05, T:0.00
Consensus pattern (11 bp):
AAAAAGAAAAA
Found at i:20010527 original size:13 final size:15
Alignment explanation
Indices: 20010511--20010545 Score: 56
Period size: 13 Copynumber: 2.5 Consensus size: 15
20010501 AAAAAAGAAA
20010511 AAAAAAACCT-A-CC
1 AAAAAAACCTAACCC
20010524 AAAAAAACCTAACCC
1 AAAAAAACCTAACCC
20010539 AAAAAAA
1 AAAAAAA
20010546 AAGAAGAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 10 0.50
14 1 0.05
15 9 0.45
ACGTcount: A:0.69, C:0.26, G:0.00, T:0.06
Consensus pattern (15 bp):
AAAAAAACCTAACCC
Found at i:20010527 original size:15 final size:17
Alignment explanation
Indices: 20010509--20010547 Score: 50
Period size: 13 Copynumber: 2.5 Consensus size: 17
20010499 AAAAAAAAGA
20010509 AAAAAAAAACCT-A-CC
1 AAAAAAAAACCTAACCC
20010524 --AAAAAAACCTAACCC
1 AAAAAAAAACCTAACCC
20010539 AAAAAAAAA
1 AAAAAAAAA
20010548 GAAGAAAAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 6
0.77 0.00 0.23
Matches are distributed among these distances:
13 10 0.50
14 1 0.05
15 2 0.10
17 7 0.35
ACGTcount: A:0.72, C:0.23, G:0.00, T:0.05
Consensus pattern (17 bp):
AAAAAAAAACCTAACCC
Found at i:20010555 original size:28 final size:29
Alignment explanation
Indices: 20010524--20010591 Score: 70
Period size: 29 Copynumber: 2.4 Consensus size: 29
20010514 AAAACCTACC
20010524 AAAAAAACCTAACCCAA-AAAAAAAGA-A
1 AAAAAAACCTAACCCAACAAAAAAAGATA
** *
20010551 GAAAAAAGA-AAAACCTAACAAAAAAAGATA
1 -AAAAAA-ACCTAACCCAACAAAAAAAGATA
20010581 AAAAAAACCTA
1 AAAAAAACCTA
20010592 GCCACCTAAC
Statistics
Matches: 31, Mismatches: 5, Indels: 7
0.72 0.12 0.16
Matches are distributed among these distances:
28 13 0.42
29 17 0.55
30 1 0.03
ACGTcount: A:0.74, C:0.15, G:0.06, T:0.06
Consensus pattern (29 bp):
AAAAAAACCTAACCCAACAAAAAAAGATA
Found at i:20010573 original size:26 final size:24
Alignment explanation
Indices: 20010543--20010591 Score: 62
Period size: 24 Copynumber: 1.9 Consensus size: 24
20010533 TAACCCAAAA
20010543 AAAAAGAAGAAAAAAGAAAAACCTAAC
1 AAAAA-AAG-AAAAA-AAAAACCTAAC
*
20010570 AAAAAAAGATAAAAAAAACCTA
1 AAAAAAAGAAAAAAAAAACCTA
20010592 GCCACCTAAC
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 9 0.43
25 4 0.19
26 3 0.14
27 5 0.24
ACGTcount: A:0.76, C:0.10, G:0.08, T:0.06
Consensus pattern (24 bp):
AAAAAAAGAAAAAAAAAACCTAAC
Found at i:20012164 original size:21 final size:20
Alignment explanation
Indices: 20012134--20012172 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
20012124 AACAATTAAT
*
20012134 TAATTTTAAAAATTCAAAAAA
1 TAATTGTAAAAATT-AAAAAA
20012155 TAATTGTAAAAATTAAAA
1 TAATTGTAAAAATTAAAA
20012173 GGTATATATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.62, C:0.03, G:0.03, T:0.33
Consensus pattern (20 bp):
TAATTGTAAAAATTAAAAAA
Found at i:20013411 original size:3 final size:3
Alignment explanation
Indices: 20013405--20013431 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
20013395 TTTTTTATTT
20013405 TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA
20013432 ATTAATCCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:20016334 original size:6 final size:7
Alignment explanation
Indices: 20016320--20016355 Score: 56
Period size: 7 Copynumber: 5.3 Consensus size: 7
20016310 TAAAAACATT
20016320 AACCAAA
1 AACCAAA
20016327 AA-CAAA
1 AACCAAA
*
20016333 AACAAAA
1 AACCAAA
20016340 AACCAAA
1 AACCAAA
20016347 AACCAAA
1 AACCAAA
20016354 AA
1 AA
20016356 AGATATTAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
6 6 0.23
7 20 0.77
ACGTcount: A:0.78, C:0.22, G:0.00, T:0.00
Consensus pattern (7 bp):
AACCAAA
Found at i:20017974 original size:14 final size:14
Alignment explanation
Indices: 20017955--20017982 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
20017945 CAACTTGACT
20017955 CAGGGAAGAAAAAG
1 CAGGGAAGAAAAAG
20017969 CAGGGAAGAAAAAG
1 CAGGGAAGAAAAAG
20017983 ACCAAATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.57, C:0.07, G:0.36, T:0.00
Consensus pattern (14 bp):
CAGGGAAGAAAAAG
Found at i:20018583 original size:3 final size:3
Alignment explanation
Indices: 20018572--20018613 Score: 57
Period size: 3 Copynumber: 14.0 Consensus size: 3
20018562 TAGCAGCAAC
* * *
20018572 AGA AAA AGA AGA AAA AGA AGA AGA AGA AGA AGA AGA AAA AGA
1 AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA AGA
20018614 TGATGATGAT
Statistics
Matches: 33, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
3 33 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (3 bp):
AGA
Found at i:20019367 original size:15 final size:15
Alignment explanation
Indices: 20019349--20019399 Score: 50
Period size: 15 Copynumber: 3.4 Consensus size: 15
20019339 CAGAACATAA
20019349 CAGAACA-AAGTAGAG
1 CAGAACAGAA-TAGAG
20019364 CAGAACAGAATAGAG
1 CAGAACAGAATAGAG
* * * *
20019379 TAGAACTGAATCGAA
1 CAGAACAGAATAGAG
20019394 CAGAAC
1 CAGAAC
20019400 TACACAGAGG
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
15 28 0.93
16 2 0.07
ACGTcount: A:0.51, C:0.16, G:0.24, T:0.10
Consensus pattern (15 bp):
CAGAACAGAATAGAG
Found at i:20019380 original size:20 final size:20
Alignment explanation
Indices: 20019324--20019397 Score: 69
Period size: 20 Copynumber: 3.7 Consensus size: 20
20019314 ACAACCCAGC
* *
20019324 CAGAACAGGACAGAGCAGAA
1 CAGAACAGAACAGAGTAGAA
* * *
20019344 CATAACAGAACAAAGTAGAG
1 CAGAACAGAACAGAGTAGAA
*
20019364 CAGAACAGAATAGAGTAGAA
1 CAGAACAGAACAGAGTAGAA
*
20019384 CTGAATC-GAACAGA
1 CAGAA-CAGAACAGA
20019398 ACTACACAGA
Statistics
Matches: 42, Mismatches: 11, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
20 41 0.98
21 1 0.02
ACGTcount: A:0.51, C:0.16, G:0.24, T:0.08
Consensus pattern (20 bp):
CAGAACAGAACAGAGTAGAA
Found at i:20019743 original size:20 final size:20
Alignment explanation
Indices: 20019718--20019757 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
20019708 CTAAGTCTGA
20019718 TGCAATGTGTTATGGCATGC
1 TGCAATGTGTTATGGCATGC
20019738 TGCAATGTGTTATGGCATGC
1 TGCAATGTGTTATGGCATGC
20019758 ATATACAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.20, C:0.15, G:0.30, T:0.35
Consensus pattern (20 bp):
TGCAATGTGTTATGGCATGC
Found at i:20032728 original size:21 final size:21
Alignment explanation
Indices: 20032688--20032728 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
20032678 TTTCTCTCTC
*
20032688 TCTCTCTCTCTCTAATTTCTG
1 TCTCTCTCTCTCTAACTTCTG
20032709 TCTCTCTCTCTC-AACCTTCT
1 TCTCTCTCTCTCTAA-CTTCT
20032729 TAGGTGCCTC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.10, C:0.39, G:0.02, T:0.49
Consensus pattern (21 bp):
TCTCTCTCTCTCTAACTTCTG
Found at i:20038785 original size:26 final size:23
Alignment explanation
Indices: 20038729--20038777 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 23
20038719 TTTTAATTTT
20038729 AAAAAATTAAAATATTTAAAATA
1 AAAAAATTAAAATATTTAAAATA
20038752 AAAAAATTAAATAATAATTTAAAATA
1 AAAAAATT-AA-AAT-ATTTAAAATA
20038778 CCAAAATTTT
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
23 8 0.35
24 2 0.09
25 3 0.13
26 10 0.43
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (23 bp):
AAAAAATTAAAATATTTAAAATA
Found at i:20043479 original size:21 final size:21
Alignment explanation
Indices: 20043453--20043508 Score: 76
Period size: 21 Copynumber: 2.7 Consensus size: 21
20043443 TTCTACCGCT
*
20043453 GTTTCTAATCTCACGGCTATA
1 GTTTCTAATCTCACGGCTACA
* *
20043474 GTTTCTAAACTCACTGCTACA
1 GTTTCTAATCTCACGGCTACA
*
20043495 GTATCTAATCTCAC
1 GTTTCTAATCTCAC
20043509 CGCCACTATT
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.27, C:0.27, G:0.11, T:0.36
Consensus pattern (21 bp):
GTTTCTAATCTCACGGCTACA
Found at i:20056820 original size:32 final size:35
Alignment explanation
Indices: 20056746--20056826 Score: 105
Period size: 36 Copynumber: 2.4 Consensus size: 35
20056736 CTTCCATTAG
* *
20056746 TCCAAATTGGTACCTAAATTATACCTCTTTTTTTTT
1 TCCAAATTGGTACCAAAATTATACCTC-TTTTCTTT
*
20056782 TCCAAATTAGTACCAAAATTATA-C-C-TTTCTTT
1 TCCAAATTGGTACCAAAATTATACCTCTTTTCTTT
20056814 TCCAAATTGGTAC
1 TCCAAATTGGTAC
20056827 ATACTTTTCT
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
32 18 0.44
34 1 0.02
35 1 0.02
36 21 0.51
ACGTcount: A:0.30, C:0.21, G:0.06, T:0.43
Consensus pattern (35 bp):
TCCAAATTGGTACCAAAATTATACCTCTTTTCTTT
Found at i:20057915 original size:9 final size:9
Alignment explanation
Indices: 20057901--20057935 Score: 52
Period size: 9 Copynumber: 3.7 Consensus size: 9
20057891 AAACCTATTA
20057901 AAAAATTTT
1 AAAAATTTT
20057910 AAAAATTTT
1 AAAAATTTT
20057919 AAAAATATTTT
1 -AAAA-ATTTT
20057930 AAAAAT
1 AAAAAT
20057936 ACTCACTCAA
Statistics
Matches: 24, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
9 11 0.46
10 8 0.33
11 5 0.21
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (9 bp):
AAAAATTTT
Found at i:20057936 original size:11 final size:10
Alignment explanation
Indices: 20057898--20057934 Score: 58
Period size: 11 Copynumber: 3.7 Consensus size: 10
20057888 TAAAAACCTA
20057898 TTAAAAAATT
1 TTAAAAAATT
20057908 TT-AAAAATT
1 TTAAAAAATT
20057917 TTAAAAATATT
1 TTAAAAA-ATT
20057928 TTAAAAA
1 TTAAAAA
20057935 TACTCACTCA
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
9 9 0.36
10 6 0.24
11 10 0.40
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
TTAAAAAATT
Found at i:20059101 original size:33 final size:33
Alignment explanation
Indices: 20059062--20059156 Score: 145
Period size: 33 Copynumber: 2.8 Consensus size: 33
20059052 AAACATGTTT
20059062 TTATTATTGTATTATTATTAAATATTATAAGTA
1 TTATTATTGTATTATTATTAAATATTATAAGTA
*
20059095 TTATTATTGTATGATTATTAAATATTATAAGTA
1 TTATTATTGTATTATTATTAAATATTATAAGTA
*
20059128 TTATTATTATTATTATTATTCAACATATT
1 TTATTATT-GTATTATTATT-AA-ATATT
20059157 TTTTATTATT
Statistics
Matches: 56, Mismatches: 3, Indels: 3
0.90 0.05 0.05
Matches are distributed among these distances:
33 40 0.71
34 9 0.16
35 2 0.04
36 5 0.09
ACGTcount: A:0.38, C:0.02, G:0.05, T:0.55
Consensus pattern (33 bp):
TTATTATTGTATTATTATTAAATATTATAAGTA
Found at i:20059167 original size:3 final size:3
Alignment explanation
Indices: 20059062--20059147 Score: 59
Period size: 3 Copynumber: 28.7 Consensus size: 3
20059052 AAACATGTTT
* * * * *
20059062 TTA TTA TT- GTA TTA TTA TTAA ATA TTA TAA GTA TTA TTA TT- GTA
1 TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA
* * * *
20059106 TGA TTA TTAA ATA TTA TAA GTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TT-A TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
20059148 CAACATATTT
Statistics
Matches: 61, Mismatches: 18, Indels: 8
0.70 0.21 0.09
Matches are distributed among these distances:
2 2 0.03
3 55 0.90
4 4 0.07
ACGTcount: A:0.37, C:0.00, G:0.06, T:0.57
Consensus pattern (3 bp):
TTA
Found at i:20062397 original size:2 final size:2
Alignment explanation
Indices: 20062390--20062414 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
20062380 CAAAATAAAC
20062390 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
20062415 ACTCTGCCTA
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:20062645 original size:118 final size:118
Alignment explanation
Indices: 20062430--20062676 Score: 449
Period size: 118 Copynumber: 2.1 Consensus size: 118
20062420 GCCTATTTAT
* * *
20062430 TGTATTAATTACAACAAAATTAATTTTTCTCCTTTTTTAGGATGTTGACTCTAATTTTTTGGACT
1 TGTACTAATTACAACAAAATTAATTTTTCCCCTTTTTTAAGATGTTGACTCTAATTTTTTGGACT
*
20062495 AAATTGATTACACTAATTAATTTAAGACGTTGAAAATGAAGATATTTGGAAAA
66 AAATTGATTACACTAATTAATTTAAGACGTTGAAAATGAAGATATTTGAAAAA
20062548 TGTACTAATTACAACAAAATTAATTTTTCCCCTTTTTTAAGATGTTGACTCTAATTTTTTGGACT
1 TGTACTAATTACAACAAAATTAATTTTTCCCCTTTTTTAAGATGTTGACTCTAATTTTTTGGACT
*
20062613 AAATTGATTACACTAATTAATTTAAGATGTTGAAAATGAAGATATTTGAAAAA
66 AAATTGATTACACTAATTAATTTAAGACGTTGAAAATGAAGATATTTGAAAAA
20062666 TGTACTAATTA
1 TGTACTAATTA
20062677 ATTTTTTGGA
Statistics
Matches: 124, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
118 124 1.00
ACGTcount: A:0.37, C:0.10, G:0.12, T:0.41
Consensus pattern (118 bp):
TGTACTAATTACAACAAAATTAATTTTTCCCCTTTTTTAAGATGTTGACTCTAATTTTTTGGACT
AAATTGATTACACTAATTAATTTAAGACGTTGAAAATGAAGATATTTGAAAAA
Found at i:20062696 original size:18 final size:19
Alignment explanation
Indices: 20062673--20062717 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
20062663 AAATGTACTA
20062673 ATTAATTT-TTTGGACCAC
1 ATTAATTTCTTTGGACCAC
20062691 ATTAATTTCTTTGGACCAC
1 ATTAATTTCTTTGGACCAC
20062710 ATTAATTT
1 ATTAATTT
20062718 AAGATCTTGA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 8 0.31
19 18 0.69
ACGTcount: A:0.29, C:0.16, G:0.09, T:0.47
Consensus pattern (19 bp):
ATTAATTTCTTTGGACCAC
Found at i:20072477 original size:38 final size:38
Alignment explanation
Indices: 20072425--20072509 Score: 143
Period size: 38 Copynumber: 2.2 Consensus size: 38
20072415 AACCCGAGCA
* *
20072425 CTAACAGTATTAATTTCTTTAAATTTGAGTTTTTAATGT
1 CTAAC-GTATTAATTTATTTAAATTTAAGTTTTTAATGT
20072464 CTAACGTATTAATTTATTTAAATTTAAGTTTTTAATGT
1 CTAACGTATTAATTTATTTAAATTTAAGTTTTTAATGT
20072502 CTAACGTA
1 CTAACGTA
20072510 CTAACTGAAT
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
38 39 0.89
39 5 0.11
ACGTcount: A:0.33, C:0.08, G:0.09, T:0.49
Consensus pattern (38 bp):
CTAACGTATTAATTTATTTAAATTTAAGTTTTTAATGT
Found at i:20073811 original size:607 final size:608
Alignment explanation
Indices: 20072508--20074336 Score: 3374
Period size: 607 Copynumber: 3.0 Consensus size: 608
20072498 ATGTCTAACG
*
20072508 TACTAACTGAATCATGGTATACAGATTCTCTAAATACCACACGGCCAGACACACGGGCGTACCTT
1 TACTAACTGAATCATGGTATACAGATTCTCTAAATACCACACGGCCAGGCACACGGGCGTACCTT
* * * * *
20072573 AGGTCGTGCGAAAACAGGGCAAAATTTTTCCAACACAGGAAGCGATAAAGTCA-CTACGGCAGTG
66 AGGTCGTGCAAAAATAGGGAAAAAATTTTCCAACACAGGAA--GATAAAGT-AGCCACGGCAGTG
20072637 CTACATGGCCGTGGACGAACCTGCCAAACTAGCACGGGCATGCGACACACCCGTGCCTATCATCC
128 CTACATGGCCGTGGACGAACCTGCCAAACTAGCACGGGCATGCGACACACCCGTGCCTATCATCC
*
20072702 ATGGGCGAACCTATCAAGTTAGCACGGGCATGGGAGAAGCGAACCAAGCGAGACACGGTTGTGTG
193 ATGGGCGAACCTATCAAGTTAACACGGGCATGGGAGAAGCGAACCAAGCGAGACACGGTTGTGTG
*
20072767 ACACGGGCGTGGGCCGAATGCCAGACGCGCTCATATTCAAAATTCACGAAACACATGGGCAAAAA
258 ACACGGGCGTGGGCCGAATGCCAGACGCGCCCATATTCAAAATTCACGAAACACATGGGCAAAAA
20072832 TTATGGCACACGGGCGTGTCCCATAGCCGTGTGACCTAAAATCTTTAAAACCCCTCACTATTCAT
323 TTATGGCACACGGGCGTGTCCCATAGCCGTGTGACCTAAAATCTTTAAAACCCCTCACTATTCAT
20072897 CATCTCCCTCCCCAAAAATCCCTAACCCTAGCCGCTGCAACTCCACACACTCTACCCCCCACACC
388 CATCTCCCTCCCCAAAAATCCCTAACCCTAGCCGCTGCAACTCCACACACTCTACCCCCCACACC
* *
20072962 CGTGCGTCGCCTACAACACCGATTTCGACACTCCAAGTTCCTTCTTTTTGCATTTGTTTACTCTT
453 CGTGCGCCGCCTACAACACCGATTTCGACACCCCAAGTTCCTTCTTTTTGCATTTGTTTACTCTT
20073027 TTCTCTCTATTTTCTCTACATATATTGCTTATTTCATGATTTCTTTGCTATATTGAACTATTTTT
518 TTCTCTCTATTTTCTCTACATATATTGCTTATTTCATGATTTCTTTGCTATATTGAACTATTTTT
20073092 GAATATTCATAGTTAGAATAATAGAA
583 GAATATTCATAGTTAGAATAATAGAA
* *
20073118 TACTAACTGAATCATGGTATACAGATTCTCTAAATACCACACGTCCAGGCACAAGGGCGTACCTT
1 TACTAACTGAATCATGGTATACAGATTCTCTAAATACCACACGGCCAGGCACACGGGCGTACCTT
*
20073183 AGGTCGTGCAAAAATAGGGAAAAAAATTTCCAACACAGGAAGATAAAGTAGCCACGGCAGTGCTA
66 AGGTCGTGCAAAAATAGGGAAAAAATTTTCCAACACAGGAAGATAAAGTAGCCACGGCAGTGCTA
* *
20073248 CATGGCCGTGGACGAACCTGTCAAACTAGCACAGGCATGCGACACACCCGTGCCTATCATCCATG
131 CATGGCCGTGGACGAACCTGCCAAACTAGCACGGGCATGCGACACACCCGTGCCTATCATCCATG
*
20073313 GGTGAACCTATCAAGTTAACACGGGCATGGGAGAAGCGAACCAAGCGAGACACGGTTGTGTGACA
196 GGCGAACCTATCAAGTTAACACGGGCATGGGAGAAGCGAACCAAGCGAGACACGGTTGTGTGACA
20073378 CGGGCGTGGGCCGAATGCCAGACGCGCCCATATTCAAAATTCACGAAACACATGGGCAAAAATTA
261 CGGGCGTGGGCCGAATGCCAGACGCGCCCATATTCAAAATTCACGAAACACATGGGCAAAAATTA
20073443 TGGCACACGGGCGTGTCCCATAGCCGTGTGACCTAAAATCTTTAAAACCCCTCACTATTCATCAT
326 TGGCACACGGGCGTGTCCCATAGCCGTGTGACCTAAAATCTTTAAAACCCCTCACTATTCATCAT
*
20073508 CTCCCTCCCC-AAAATCCCTAACCCTAGCCGCTGCAACTCCACACACTCTACCCCCTACACCCGT
391 CTCCCTCCCCAAAAATCCCTAACCCTAGCCGCTGCAACTCCACACACTCTACCCCCCACACCCGT
20073572 GCGCCGCCTACAACACCGATTTCGACACCCCAAGTTCCTTCTTTTTGCATTTGTTTACTCTTTTC
456 GCGCCGCCTACAACACCGATTTCGACACCCCAAGTTCCTTCTTTTTGCATTTGTTTACTCTTTTC
20073637 TCTCTATTTTCTCTACATATATTGCTTATTTCATGATTTCTTTGCTATATTGAACTATTTTTGAA
521 TCTCTATTTTCTCTACATATATTGCTTATTTCATGATTTCTTTGCTATATTGAACTATTTTTGAA
20073702 TATTCATAGTTAGAATAATAGAA
586 TATTCATAGTTAGAATAATAGAA
20073725 TACTAACTGAATCATGGTATACAGATTCTCTAAATACCACACGGCCAGGCACACGGGCGTACCTT
1 TACTAACTGAATCATGGTATACAGATTCTCTAAATACCACACGGCCAGGCACACGGGCGTACCTT
20073790 AGGTCGTGCAAAAATAGGGAAAAAATTTTCCAACACAGGAAGATAAAGTAGCCACGGCAGTGCTA
66 AGGTCGTGCAAAAATAGGGAAAAAATTTTCCAACACAGGAAGATAAAGTAGCCACGGCAGTGCTA
*
20073855 CATGGCCGTGGACGAACCTGCCAAACTAGCACGGGCATGCGACACACTCGTGCCTATCATCCATG
131 CATGGCCGTGGACGAACCTGCCAAACTAGCACGGGCATGCGACACACCCGTGCCTATCATCCATG
* *
20073920 GGCGAACCTATCAAGTTAACACGGGTATGGGAGAAGCGAACCAAGCGAGACACGGCTGTGTGACA
196 GGCGAACCTATCAAGTTAACACGGGCATGGGAGAAGCGAACCAAGCGAGACACGGTTGTGTGACA
* *
20073985 CGGGAGTGGGCCGAATGCCAGACGCGCCCATATTTAAAATTCACGAAACACATGGGCAAAAATTA
261 CGGGCGTGGGCCGAATGCCAGACGCGCCCATATTCAAAATTCACGAAACACATGGGCAAAAATTA
*
20074050 GGGCACACGGGCGTGTCCCATAGCCGTGTGACCTAAAATCTTTAAAACCCCTCACTATTCATCAT
326 TGGCACACGGGCGTGTCCCATAGCCGTGTGACCTAAAATCTTTAAAACCCCTCACTATTCATCAT
*
20074115 CTCCCTCCCCAAAAATCCCTAACCCTAGCCGCTGCAACTCCACACACCCTACCCCCCACACCCGT
391 CTCCCTCCCCAAAAATCCCTAACCCTAGCCGCTGCAACTCCACACACTCTACCCCCCACACCCGT
* *
20074180 GCGCCGCCTACAACACCGATTTCGACACCTCAAGTTCCTTCTTTTTGCATTTGTTTATTCTTTTC
456 GCGCCGCCTACAACACCGATTTCGACACCCCAAGTTCCTTCTTTTTGCATTTGTTTACTCTTTTC
20074245 TCTCTATTTTCTCTACATATATTGCTTATTTCATGATTTCTTTGCTATATTGAACTATTTTTGAA
521 TCTCTATTTTCTCTACATATATTGCTTATTTCATGATTTCTTTGCTATATTGAACTATTTTTGAA
*
20074310 TATTTATAGTTAGAATAATAGAA
586 TATTCATAGTTAGAATAATAGAA
20074333 TACT
1 TACT
20074337 TTTGCTCTTT
Statistics
Matches: 1183, Mismatches: 34, Indels: 6
0.97 0.03 0.00
Matches are distributed among these distances:
607 593 0.50
608 492 0.42
610 98 0.08
ACGTcount: A:0.29, C:0.28, G:0.18, T:0.25
Consensus pattern (608 bp):
TACTAACTGAATCATGGTATACAGATTCTCTAAATACCACACGGCCAGGCACACGGGCGTACCTT
AGGTCGTGCAAAAATAGGGAAAAAATTTTCCAACACAGGAAGATAAAGTAGCCACGGCAGTGCTA
CATGGCCGTGGACGAACCTGCCAAACTAGCACGGGCATGCGACACACCCGTGCCTATCATCCATG
GGCGAACCTATCAAGTTAACACGGGCATGGGAGAAGCGAACCAAGCGAGACACGGTTGTGTGACA
CGGGCGTGGGCCGAATGCCAGACGCGCCCATATTCAAAATTCACGAAACACATGGGCAAAAATTA
TGGCACACGGGCGTGTCCCATAGCCGTGTGACCTAAAATCTTTAAAACCCCTCACTATTCATCAT
CTCCCTCCCCAAAAATCCCTAACCCTAGCCGCTGCAACTCCACACACTCTACCCCCCACACCCGT
GCGCCGCCTACAACACCGATTTCGACACCCCAAGTTCCTTCTTTTTGCATTTGTTTACTCTTTTC
TCTCTATTTTCTCTACATATATTGCTTATTTCATGATTTCTTTGCTATATTGAACTATTTTTGAA
TATTCATAGTTAGAATAATAGAA
Found at i:20089319 original size:32 final size:32
Alignment explanation
Indices: 20089235--20089339 Score: 102
Period size: 32 Copynumber: 3.3 Consensus size: 32
20089225 CGCCCATATA
* * * * *
20089235 GCCCACACAACCCCAATAACCCAACCCGTATG
1 GCCCACACGACCCAAATAACCTACCCCGTGTG
* **
20089267 GCCCACACTACCCAAATAACCTAGGCCGTGTG
1 GCCCACACGACCCAAATAACCTACCCCGTGTG
* *
20089299 GCCCACACGACCTAACTAACCTACCCCGTGTG
1 GCCCACACGACCCAAATAACCTACCCCGTGTG
* *
20089331 ACCAACACG
1 GCCCACACG
20089340 GTTGTTTGGC
Statistics
Matches: 60, Mismatches: 13, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
32 60 1.00
ACGTcount: A:0.30, C:0.43, G:0.14, T:0.12
Consensus pattern (32 bp):
GCCCACACGACCCAAATAACCTACCCCGTGTG
Done.