Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold50
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: 2541760
ACGTcount: A:0.31, C:0.18, G:0.18, T:0.32
Warning! 26494 characters in sequence are not A, C, G, or T
File 7 of 16
Found at i:1116750 original size:28 final size:26
Alignment explanation
Indices: 1116696--1116754 Score: 73
Period size: 28 Copynumber: 2.2 Consensus size: 26
1116686 CCTTCTCTTC
1116696 AAAAAAAAAAAGAAAAAAAAAGCAAAA
1 AAAAAAAAAAAGAAAAAAAAAG-AAAA
* * *
1116723 AAACAAAACAAAGAAAAAGAGAGAAAA
1 AAA-AAAAAAAAGAAAAAAAAAGAAAA
1116750 AAAAA
1 AAAAA
1116755 GAACCTGCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 2 0.07
27 10 0.36
28 16 0.57
ACGTcount: A:0.85, C:0.05, G:0.10, T:0.00
Consensus pattern (26 bp):
AAAAAAAAAAAGAAAAAAAAAGAAAA
Found at i:1118139 original size:55 final size:54
Alignment explanation
Indices: 1117726--1118529 Score: 867
Period size: 55 Copynumber: 14.1 Consensus size: 54
1117716 TGCTTTTTAC
* * *
1117726 TCCTCAAAGAGCAGGACGCCTTTTCTTTAAAAGCCCACACAAGTTGGTGGCATTTTCCAA
1 TCCTCAAAGAGCAGGACACC-TTTC----AAAGCCCACACAAGTTGGTGGCACTTT-CAG
* *
1117786 TCCTCAAAGAGCAGGACACCTTTTCTTTTAAATCCCACACAAGTTGGTGGCACCTTCAG
1 TCCTCAAAGAGCAGGACACC-TTTC----AAAGCCCACACAAGTTGGTGGCACTTTCAG
* * * * *
1117845 TCGTCAAAAAGCGGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAG
1 TCCTCAAAGAGCAGGACACC-TTTC----AAAGCCCACACAAGTTGGTGGCACTTTCAG
* * *
1117904 TCCTCAAAGAGCACGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACCTTCAG
1 TCCTCAAAGAGCAGGACACC-TTTC----AAAGCCCACACAAGTTGGTGGCACTTTCAG
* * * * *
1117963 TCCTGAAAGAGCGGGACGCCTTTTCTTTTAAAGCCCACCCAAGTTGGTGGCACCTTCAG
1 TCCTCAAAGAGCAGGACACC-TTTC----AAAGCCCACACAAGTTGGTGGCACTTTCAG
* * *
1118022 TCCTCAAAGAGCAAGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTCAG
1 TCCTCAAAGAGCAGGA--C----ACCTTTCAAAGCCCACACAAGTTGGTGGCA-CTTTCAG
* * * *
1118083 TCCCCAAAAAGCAGGACCCCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAG
1 TCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTTT-CAG
* * *
1118138 TCCTTAAAGAGTAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAG
1 TCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTTT-CAG
1118193 TCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCAACTTTCAG
1 TCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGC-ACTTTCAG
* *
1118248 TCCCCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAG
1 TCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTTT-CAG
*
1118303 TCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAG
1 TCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTTT-CAG
*
1118358 TCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCATTTTCCAG
1 TCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTTT-CAG
*
1118413 TCCTCAAAGAGCAGGACACCTCTT-AAAGCCCATACAAGTTGGTGGCACCTTTCAG
1 TCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-CTTTCAG
* * * *
1118468 CCCTCAAAGAGCAGGACGCC-TTCAAAGCCCACACGAGTTGGTGGCACTTTTTAG
1 TCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCAC-TTTCAG
1118522 TCCTCAAA
1 TCCTCAAA
1118530 AAGTAGGATA
Statistics
Matches: 677, Mismatches: 51, Indels: 38
0.88 0.07 0.05
Matches are distributed among these distances:
53 3 0.00
54 42 0.06
55 343 0.51
56 11 0.02
59 180 0.27
60 73 0.11
61 20 0.03
64 4 0.01
65 1 0.00
ACGTcount: A:0.28, C:0.29, G:0.20, T:0.24
Consensus pattern (54 bp):
TCCTCAAAGAGCAGGACACCTTTCAAAGCCCACACAAGTTGGTGGCACTTTCAG
Found at i:1118326 original size:27 final size:27
Alignment explanation
Indices: 1118296--1118433 Score: 68
Period size: 27 Copynumber: 5.0 Consensus size: 27
1118286 TTGGTGGCAT
1118296 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
* * * * ** *
1118323 TTTCAAAGCCCACACAAGTTGGTGG-CA-T
1 TTTC-CAGTCCTCA-AAG-AGCAGGACACC
1118351 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
* * * * ** *
1118378 TTTCAAAGCCCACACAAGTTGGTGG-CA-T
1 TTTC-CAGTCCTCA-AAG-AGCAGGACACC
1118406 TTTCCAGTCCTCAAAGAGCAGGACACC
1 TTTCCAGTCCTCAAAGAGCAGGACACC
1118433 T
1 T
1118434 CTTAAAGCCC
Statistics
Matches: 73, Mismatches: 28, Indels: 20
0.60 0.23 0.17
Matches are distributed among these distances:
25 6 0.08
26 10 0.14
27 21 0.29
28 20 0.27
29 10 0.14
30 6 0.08
ACGTcount: A:0.29, C:0.30, G:0.20, T:0.22
Consensus pattern (27 bp):
TTTCCAGTCCTCAAAGAGCAGGACACC
Found at i:1119014 original size:19 final size:18
Alignment explanation
Indices: 1118989--1119085 Score: 88
Period size: 19 Copynumber: 5.8 Consensus size: 18
1118979 ATTTCAGCGA
1118989 TTTGTATCGATACATAAG
1 TTTGTATCGATACATAAG
1119007 TGTTGTATCGATAC--AA-
1 T-TTGTATCGATACATAAG
1119023 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
*
1119039 TGTTGTATCAATAC--AA-
1 T-TTGTATCGATACATAAG
1119055 --TGTATCGATACATAAG
1 TTTGTATCGATACATAAG
1119071 TTTTGTATCGATACA
1 -TTTGTATCGATACA
1119086 ATATATCGCT
Statistics
Matches: 64, Mismatches: 2, Indels: 25
0.70 0.02 0.27
Matches are distributed among these distances:
13 21 0.33
15 4 0.06
17 4 0.06
18 1 0.02
19 34 0.53
ACGTcount: A:0.34, C:0.12, G:0.16, T:0.37
Consensus pattern (18 bp):
TTTGTATCGATACATAAG
Found at i:1119027 original size:32 final size:32
Alignment explanation
Indices: 1118991--1119093 Score: 179
Period size: 32 Copynumber: 3.2 Consensus size: 32
1118981 TTCAGCGATT
1118991 TGTATCGATACATAAGTGTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
1119023 TGTATCGATACATAAGTGTTGTATCAATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
1119055 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTGTTGTATCGATACAA
*
1119087 TATATCG
1 TGTATCG
1119094 CTAGGAAGCT
Statistics
Matches: 67, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 67 1.00
ACGTcount: A:0.35, C:0.13, G:0.17, T:0.36
Consensus pattern (32 bp):
TGTATCGATACATAAGTGTTGTATCGATACAA
Found at i:1119028 original size:13 final size:13
Alignment explanation
Indices: 1119010--1119066 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
1119000 ACATAAGTGT
1119010 TGTATCGATACAA
1 TGTATCGATACAA
1119023 TGTATCGATACATAA
1 TGTATCGATAC--AA
*
1119038 GTGTTGTATCAATACAA
1 ----TGTATCGATACAA
1119055 TGTATCGATACA
1 TGTATCGATACA
1119067 TAAGTTTTGT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 22 0.61
15 2 0.06
17 2 0.06
19 10 0.28
ACGTcount: A:0.37, C:0.14, G:0.16, T:0.33
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1119135 original size:13 final size:13
Alignment explanation
Indices: 1119117--1119142 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1119107 GCCAAGGAAA
1119117 TGTATCGATACAT
1 TGTATCGATACAT
1119130 TGTATCGATACAT
1 TGTATCGATACAT
1119143 CTATTCTTTG
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1121564 original size:51 final size:51
Alignment explanation
Indices: 1121498--1121607 Score: 154
Period size: 51 Copynumber: 2.2 Consensus size: 51
1121488 GTTGAGTTTC
* *
1121498 TCAATTCTCCATAATCGGGGATA-TCCCAACTCCGATTTTATTT-TCAAAACA
1 TCAATTTTCTATAATCGGGGATACT-CCAACTCCGATTTTATTTCT-AAAACA
1121549 -CTAATTTTCTATAATCGGGGATACTCCAACTCCGATTTTATTTCTAAAACA
1 TC-AATTTTCTATAATCGGGGATACTCCAACTCCGATTTTATTTCTAAAACA
1121600 TCAATTTT
1 TCAATTTT
1121608 TCATCGGGGA
Statistics
Matches: 53, Mismatches: 2, Indels: 8
0.84 0.03 0.13
Matches are distributed among these distances:
50 1 0.02
51 49 0.92
52 3 0.06
ACGTcount: A:0.31, C:0.23, G:0.09, T:0.37
Consensus pattern (51 bp):
TCAATTTTCTATAATCGGGGATACTCCAACTCCGATTTTATTTCTAAAACA
Found at i:1121678 original size:28 final size:27
Alignment explanation
Indices: 1121608--1121682 Score: 98
Period size: 27 Copynumber: 2.7 Consensus size: 27
1121598 CATCAATTTT
*
1121608 TCATCGGGGATACTTCAACCCCGTTAA
1 TCATCGGGGATACTCCAACCCCGTTAA
1121635 TCATCGGGGATACTCCAACCCCGTT-A
1 TCATCGGGGATACTCCAACCCCGTTAA
**
1121661 TTTTCGAGGGGATACTCCAACC
1 TCATC--GGGGATACTCCAACC
1121683 TCCGGCTTTA
Statistics
Matches: 43, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
26 4 0.09
27 24 0.56
28 15 0.35
ACGTcount: A:0.24, C:0.31, G:0.20, T:0.25
Consensus pattern (27 bp):
TCATCGGGGATACTCCAACCCCGTTAA
Found at i:1121876 original size:52 final size:51
Alignment explanation
Indices: 1121748--1121917 Score: 193
Period size: 52 Copynumber: 3.3 Consensus size: 51
1121738 TTATCTCCGA
*
1121748 GGGGATACTCCAACCCCGATTTTATTTCCAAATCA-TCAATTTTCCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACT-AATTTTCCATAATC
* *
1121799 GGGGATACTCCAACCCCAGCA--TTATTTTCAAAACACTAATTTTCCTTTAATC
1 GGGGATACTCCAACCCC-G-ATTTTATTTCCAAAACACTAATTTTCC-ATAATC
* * * * *
1121851 GGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATT
1 GGGGATACTCCAACCCCGATTTTATTTCC-AAAACACTAATTTTCCATAATC
*
1121903 GAGGATACTCCAACC
1 GGGGATACTCCAACC
1121918 TTGTTATTTC
Statistics
Matches: 100, Mismatches: 12, Indels: 13
0.80 0.10 0.10
Matches are distributed among these distances:
50 1 0.01
51 38 0.38
52 46 0.46
53 15 0.15
ACGTcount: A:0.31, C:0.27, G:0.11, T:0.31
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAACACTAATTTTCCATAATC
Found at i:1122020 original size:290 final size:283
Alignment explanation
Indices: 1121498--1122116 Score: 841
Period size: 290 Copynumber: 2.2 Consensus size: 283
1121488 GTTGAGTTTC
* *
1121498 TCAATTCTCCATAATCGGGGATA-TCCCAACTCCGATTTTATTTTCAAAACACTAATTTTCTATA
1 TCAATTTTCCATAATCGGGGATACT-CCAACCCCGA--TTATTTTCAAAACACTAATTTTCTATA
* * * *
1121562 ATCGGGGATACTCCAACTCCGATTTTATTTCTAAAACATCAATTTTTCATCGGGGATACTTCAAC
63 ATCGGGGATACTCCAACTCCGATTTTATTTCAAAAACACCAATTTTTCATCGAGGATACTCCAAC
** *
1121627 CCCGTTAATCATCGGGGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCTCCGGCTTT
128 CCCGTTAATCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCTCCGGCTTT
* * *
1121692 ATTTCTAAAATATTAATTTCTCATAATTGGGGATACTCCAACCCCGTTATCTCCGAGGGGATACT
193 ATTCCCAAAATATTAATTTCTCATAATTGGGGATACTCCAACCCCATTATCTCCGAGGGGATACT
1121757 CCAACCCCGATTTTATTTCCAAATCA
258 CCAACCCCGATTTTATTTCCAAATCA
*
1121783 TCAATTTTCCATAATCGGGGATACTCCAACCCCAGCATTATTTTCAAAACACTAATTTTCCTTTA
1 TCAATTTTCCATAATCGGGGATACTCCAACCCC-G-ATTATTTTCAAAACACTAATTTT-CTATA
*
1121848 ATCGGGGATACTCCAACTCCGATTTTATTTCCAAAAACACCAATTTTTCACAATTGAGGATACTC
63 ATCGGGGATACTCCAACTCCGATTTTATTT-CAAAAACACCAATTTTT--C-ATCGAGGATACTC
** *
1121913 CAACCTTGTTATTTCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACC-CCG
124 CAACCCCGTTA-ATCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCTCCG
* * *
1121977 GCTTTATTCCCAAAATATTGATTTCTCATAATTGGGGATACTCCAACCTCATTATTTCCGAGGGG
188 GCTTTATTCCCAAAATATTAATTTCTCATAATTGGGGATACTCCAACCCCATTATCTCCGAGGGG
* * * * *
1122042 ATACTCCAATCCTGATTTTTTTTTCTAATCA
253 ATACTCCAACCCCGATTTTATTTCCAAATCA
* * * *
1122073 TCGA-TTTCTCACAACCGGGGATACTCCAGCCCCG-TTATTTTCAA
1 TCAATTTTC-CATAATCGGGGATACTCCAACCCCGATTATTTTCAA
1122117 GGGGACACTC
Statistics
Matches: 295, Mismatches: 29, Indels: 18
0.86 0.08 0.05
Matches are distributed among these distances:
285 51 0.17
286 36 0.12
287 26 0.09
289 6 0.02
290 131 0.44
291 45 0.15
ACGTcount: A:0.27, C:0.27, G:0.13, T:0.33
Consensus pattern (283 bp):
TCAATTTTCCATAATCGGGGATACTCCAACCCCGATTATTTTCAAAACACTAATTTTCTATAATC
GGGGATACTCCAACTCCGATTTTATTTCAAAAACACCAATTTTTCATCGAGGATACTCCAACCCC
GTTAATCATCGGGGATACTCCAACCCCGTTACCTCCGAGGGGATACTCCAACCTCCGGCTTTATT
CCCAAAATATTAATTTCTCATAATTGGGGATACTCCAACCCCATTATCTCCGAGGGGATACTCCA
ACCCCGATTTTATTTCCAAATCA
Found at i:1125476 original size:1 final size:1
Alignment explanation
Indices: 1125470--1125536 Score: 107
Period size: 1 Copynumber: 67.0 Consensus size: 1
1125460 AAAGTGTTTG
***
1125470 AAAAAAAAAAAAATTGAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1125535 AA
1 AA
1125537 TTTAAATGTA
Statistics
Matches: 63, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
1 63 1.00
ACGTcount: A:0.96, C:0.00, G:0.01, T:0.03
Consensus pattern (1 bp):
A
Found at i:1125565 original size:21 final size:21
Alignment explanation
Indices: 1125541--1125597 Score: 105
Period size: 21 Copynumber: 2.7 Consensus size: 21
1125531 AAAAAATTTA
1125541 AATGTATCGATACATTTGTAG
1 AATGTATCGATACATTTGTAG
*
1125562 AATGTATCGATACATTTGTGG
1 AATGTATCGATACATTTGTAG
1125583 AATGTATCGATACAT
1 AATGTATCGATACAT
1125598 CCTACAAATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.33, C:0.11, G:0.19, T:0.37
Consensus pattern (21 bp):
AATGTATCGATACATTTGTAG
Found at i:1125677 original size:19 final size:19
Alignment explanation
Indices: 1125653--1125720 Score: 85
Period size: 19 Copynumber: 3.9 Consensus size: 19
1125643 AATTCAACAA
1125653 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
1125672 TTTGTATCGATAC--AA--
1 TTTGTATCGATACATAAGT
1125687 --TGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
1125704 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
1125721 TTAGCTACTG
Statistics
Matches: 43, Mismatches: 0, Indels: 12
0.78 0.00 0.22
Matches are distributed among these distances:
13 11 0.26
15 2 0.05
17 2 0.05
19 28 0.65
ACGTcount: A:0.35, C:0.12, G:0.15, T:0.38
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:1125692 original size:13 final size:13
Alignment explanation
Indices: 1125674--1125698 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1125664 ACATAAGTTT
1125674 TGTATCGATACAA
1 TGTATCGATACAA
1125687 TGTATCGATACA
1 TGTATCGATACA
1125699 TAAGTATTGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1125696 original size:32 final size:32
Alignment explanation
Indices: 1125655--1125717 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1125645 TTCAACAATT
*
1125655 TGTATCGATACATAAGTTTTGTATCGATACAA
1 TGTATCGATACATAAGTATTGTATCGATACAA
1125687 TGTATCGATACATAAGTATTGTATCGATACA
1 TGTATCGATACATAAGTATTGTATCGATACA
1125718 TAATTAGCTA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.37
Consensus pattern (32 bp):
TGTATCGATACATAAGTATTGTATCGATACAA
Found at i:1125778 original size:13 final size:13
Alignment explanation
Indices: 1125760--1125785 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1125750 CATTTTTCTG
1125760 TGTATCGATACAT
1 TGTATCGATACAT
1125773 TGTATCGATACAT
1 TGTATCGATACAT
1125786 GGATCTTTGT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1125782 original size:33 final size:33
Alignment explanation
Indices: 1125740--1125806 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1125730 GCCAAGGAAA
***
1125740 TGTATCGATACATTTTTCTGTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
*
1125773 TGTATCGATACATGGATCTTTGTATCGATACAT
1 TGTATCGATACATGGATCTGTGTATCGATACAT
1125806 T
1 T
1125807 TGGAAATTTT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.25, C:0.15, G:0.16, T:0.43
Consensus pattern (33 bp):
TGTATCGATACATGGATCTGTGTATCGATACAT
Found at i:1128329 original size:28 final size:27
Alignment explanation
Indices: 1128262--1128334 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
1128252 CTTCACAATC
* *
1128262 GGGGACACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCATA
*
1128289 GGGGATACTCCAACCCCGTTATTTC-TGA
1 GGGGATACTCCAACCCCGTTA-ATCAT-A
1128317 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
1128335 ACTTTATTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
27 21 0.51
28 20 0.49
ACGTcount: A:0.23, C:0.34, G:0.22, T:0.21
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCATA
Found at i:1128379 original size:51 final size:51
Alignment explanation
Indices: 1128317--1128487 Score: 207
Period size: 51 Copynumber: 3.3 Consensus size: 51
1128307 TTATTTCTGA
* *
1128317 GGGGATACTCCAACCCCGACTTTATTTTCAAAATATCAATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
* * * * *
1128368 GGGGATACTCCAACCCCGGTTTTATTTTCACAACACCAATTTCTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTT-TTC-ATAATC
** * *
1128421 GGGGATACTCCAATTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTTC-AAAATACCAATTTTTCATAATC
*
1128473 GAGGATACTCCAACC
1 GGGGATACTCCAACC
1128488 TCGTTATTTC
Statistics
Matches: 98, Mismatches: 19, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 37 0.38
52 18 0.18
53 32 0.33
54 11 0.11
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
Found at i:1128507 original size:28 final size:27
Alignment explanation
Indices: 1128475--1128551 Score: 93
Period size: 28 Copynumber: 2.8 Consensus size: 27
1128465 TCACAATCGA
1128475 GGATACTCCAACCTCGTTATTTCATC-AG
1 GGATACTCCAACCTCGTTATTTC--CGAG
* *
1128503 GGATACTCCAACCCCGTTACTTCCGAG
1 GGATACTCCAACCTCGTTATTTCCGAG
*
1128530 GGAACACTCCAACCTCGTTATT
1 GG-ATACTCCAACCTCGTTATT
1128552 ATCTCCAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
26 1 0.02
27 4 0.10
28 37 0.88
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (27 bp):
GGATACTCCAACCTCGTTATTTCCGAG
Found at i:1143729 original size:16 final size:16
Alignment explanation
Indices: 1143708--1143762 Score: 83
Period size: 16 Copynumber: 3.3 Consensus size: 16
1143698 TCTCTTCAAA
1143708 AAAAAAAAAAAAAAAG
1 AAAAAAAAAAAAAAAG
*
1143724 AAAAAAAAAAAAAAAC
1 AAAAAAAAAAAAAAAG
1143740 AAAAAAAACAAAACAAAG
1 AAAAAAAA-AAAA-AAAG
1143758 AAAAA
1 AAAAA
1143763 GAGAGAAAAG
Statistics
Matches: 35, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
16 23 0.66
17 4 0.11
18 8 0.23
ACGTcount: A:0.91, C:0.05, G:0.04, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAAAAAG
Found at i:1143778 original size:1 final size:1
Alignment explanation
Indices: 1143705--1143762 Score: 71
Period size: 1 Copynumber: 58.0 Consensus size: 1
1143695 CCTTCTCTTC
* * * * *
1143705 AAAAAAAAAAAAAAAAAAGAAAAAAAAAAAAAAACAAAAAAAACAAAACAAAGAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1143763 GAGAGAAAAG
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.91, C:0.05, G:0.03, T:0.00
Consensus pattern (1 bp):
A
Found at i:1144829 original size:55 final size:55
Alignment explanation
Indices: 1144744--1146191 Score: 2195
Period size: 55 Copynumber: 26.3 Consensus size: 55
1144734 TCCGCTTTTT
*
1144744 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* *
1144799 AGTCCTCGAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
*
1144854 AGTCCTCAACGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
1144909 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
1144964 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1145019 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA--TTGTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTT-T-C
1145074 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* *
1145129 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-C
*
1145184 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-C
*
1145239 AGTCCTCAACGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
1145294 AGTCCCCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1145349 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA--TTGTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTT-T-C
1145404 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
1145459 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
* *
1145514 AGTCCTCAAAGAGCAGGACACCTTTTAAAGCCCACACAAGTTGGTGGCA-TTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
1145568 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
* *
1145623 AGTCCTCAACGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCGCC-TTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
1145677 TAGTCCTCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 -AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* *
1145733 AATCCTCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCACCTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTT-C
*
1145789 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCGCC-TTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* **
1145843 TAGTCCTCAAAGAGCAGGACACCTCTCAAAGCCCACACAAGTTGGTGGCATTTTTC
1 -AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
*
1145899 AGTCCTCAAAGAGCAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
* *
1145954 AGTCCTCAAAGAACAGGACACCT-TTCAAAGCCCACACAAGTTGGTGGCA-TTTTCC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTT-C
1146009 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
* * * *
1146064 ATTCCCCAAAGAGCAGGACA-CTTTTCAAAGCCCACACAAGTGGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
* * * *
1146119 AGTCCTCAAAGAGCAGGACGCCT-TTCAAAGCCCACACGAGTTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGGACACCTCTT-AAAGCCCACACAAGTTGGTGGCACCTTTC
* *
1146174 ACTCCTCAATGAGCAGGA
1 AGTCCTCAAAGAGCAGGA
1146192 TACAACTTAT
Statistics
Matches: 1308, Mismatches: 49, Indels: 72
0.92 0.03 0.05
Matches are distributed among these distances:
53 6 0.00
54 81 0.06
55 1137 0.87
56 80 0.06
57 4 0.00
ACGTcount: A:0.29, C:0.31, G:0.20, T:0.20
Consensus pattern (55 bp):
AGTCCTCAAAGAGCAGGACACCTCTTAAAGCCCACACAAGTTGGTGGCACCTTTC
Found at i:1144916 original size:29 final size:29
Alignment explanation
Indices: 1144884--1144971 Score: 71
Period size: 29 Copynumber: 3.1 Consensus size: 29
1144874 CCTCTTAAAG
1144884 CCCACACAAGTTGGTGGCACCTTTCAGTC
1 CCCACACAAGTTGGTGGCACCTTTCAGTC
** * *
1144913 CCCA-A-AGAG-CAG-GACACCTCTTAAAG--
1 CCCACACA-AGTTGGTGGCACCT-TT-CAGTC
1144939 CCCACACAAGTTGGTGGCACCTTTCAGTC
1 CCCACACAAGTTGGTGGCACCTTTCAGTC
1144968 CCCA
1 CCCA
1144972 AAGAGCAGGA
Statistics
Matches: 42, Mismatches: 8, Indels: 18
0.62 0.12 0.26
Matches are distributed among these distances:
26 10 0.24
27 9 0.21
28 9 0.21
29 14 0.33
ACGTcount: A:0.26, C:0.35, G:0.19, T:0.19
Consensus pattern (29 bp):
CCCACACAAGTTGGTGGCACCTTTCAGTC
Found at i:1145041 original size:26 final size:26
Alignment explanation
Indices: 1144901--1145045 Score: 87
Period size: 26 Copynumber: 5.3 Consensus size: 26
1144891 AAGTTGGTGG
*
1144901 CACCTTTCAGTCCCCAAAGAGCAGGA
1 CACCTTTCAGTCCACAAAGAGCAGGA
* * * **
1144927 CACCTCTTAAAGCCCACACAAGTTGGTGG-
1 CACCT-TT-CAGTCCACA-AAG-AGCAGGA
*
1144956 CACCTTTCAGTCCCCAAAGAGCAGGA
1 CACCTTTCAGTCCACAAAGAGCAGGA
* * * **
1144982 CACCTCTTAAAGCCCACACAAGTTGGTGG-
1 CACCT-TT-CAGTCCACA-AAG-AGCAGGA
*
1145011 CACCTTTCAGTCCTCAAAGAGCAGGA
1 CACCTTTCAGTCCACAAAGAGCAGGA
1145037 CACCTTTCA
1 CACCTTTCA
1145046 AAGCCCACAC
Statistics
Matches: 85, Mismatches: 24, Indels: 20
0.66 0.19 0.16
Matches are distributed among these distances:
25 6 0.07
26 25 0.29
27 16 0.19
28 16 0.19
29 16 0.19
30 6 0.07
ACGTcount: A:0.29, C:0.33, G:0.19, T:0.19
Consensus pattern (26 bp):
CACCTTTCAGTCCACAAAGAGCAGGA
Found at i:1146119 original size:29 final size:29
Alignment explanation
Indices: 1145972--1146119 Score: 71
Period size: 29 Copynumber: 5.3 Consensus size: 29
1145962 AAGAACAGGA
*
1145972 CACCTTTCAAAGCCCACACAAGTTGGTGG
1 CACCTTTCAAAGCCCACACAAGTGGGTGG
* * * * * * *
1146001 CA-TTTTC-CAGTCCTCA-AAGAGCAG-GA
1 CACCTTTCAAAGCCCACACAAGTG-GGTGG
*
1146027 CACCTCTT-AAAGCCCACACAAGTTGGTGG
1 CACCT-TTCAAAGCCCACACAAGTGGGTGG
** * * *
1146056 CACCTTTC-ATTCCC-CA-AAGAGCAG-GA
1 CACCTTTCAAAGCCCACACAAGTG-GGTGG
*
1146082 CACTTTTCAAAGCCCACACAAGTGGGTGG
1 CACCTTTCAAAGCCCACACAAGTGGGTGG
1146111 CACCTTTCA
1 CACCTTTCA
1146120 GTCCTCAAAG
Statistics
Matches: 78, Mismatches: 29, Indels: 24
0.60 0.22 0.18
Matches are distributed among these distances:
26 17 0.22
27 15 0.19
28 22 0.28
29 24 0.31
ACGTcount: A:0.28, C:0.31, G:0.19, T:0.22
Consensus pattern (29 bp):
CACCTTTCAAAGCCCACACAAGTGGGTGG
Found at i:1146793 original size:1 final size:1
Alignment explanation
Indices: 1146787--1146851 Score: 103
Period size: 1 Copynumber: 65.0 Consensus size: 1
1146777 AAAGTGTTTG
***
1146787 AAAAAAAAAAAAATTGAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
1146852 TTTAACACAC
Statistics
Matches: 61, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
1 61 1.00
ACGTcount: A:0.95, C:0.00, G:0.02, T:0.03
Consensus pattern (1 bp):
A
Found at i:1149256 original size:28 final size:27
Alignment explanation
Indices: 1149189--1149261 Score: 94
Period size: 27 Copynumber: 2.7 Consensus size: 27
1149179 CTTCACAATC
* *
1149189 GGGGACACTCCAACCCCGTTAATCATC
1 GGGGATACTCCAACCCCGTTAATCATA
*
1149216 GGGGATACTCCAACCCCGTTATTTC-TGA
1 GGGGATACTCCAACCCCGTTA-ATCAT-A
1149244 GGGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
1149262 ACTTTATTTT
Statistics
Matches: 41, Mismatches: 3, Indels: 3
0.87 0.06 0.06
Matches are distributed among these distances:
27 21 0.51
28 20 0.49
ACGTcount: A:0.23, C:0.34, G:0.22, T:0.21
Consensus pattern (27 bp):
GGGGATACTCCAACCCCGTTAATCATA
Found at i:1149306 original size:51 final size:51
Alignment explanation
Indices: 1149244--1149414 Score: 207
Period size: 51 Copynumber: 3.3 Consensus size: 51
1149234 TTATTTCTGA
* *
1149244 GGGGATACTCCAACCCCGACTTTATTTTCAAAATATCAATTTTTCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
* * * * *
1149295 GGGGATACTCCAACCCCGGTTTTATTTTCACAACACCAATTTCTCCTTTAATC
1 GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTT-TTC-ATAATC
** * *
1149348 GGGGATACTCCAATTCCGATTTTATTTCCAAAAATACCAATTTTTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTTC-AAAATACCAATTTTTCATAATC
*
1149400 GAGGATACTCCAACC
1 GGGGATACTCCAACC
1149415 TCGTTATTTC
Statistics
Matches: 98, Mismatches: 19, Indels: 5
0.80 0.16 0.04
Matches are distributed among these distances:
51 37 0.38
52 18 0.18
53 32 0.33
54 11 0.11
ACGTcount: A:0.30, C:0.26, G:0.11, T:0.33
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTTCAAAATACCAATTTTTCATAATC
Found at i:1149434 original size:28 final size:27
Alignment explanation
Indices: 1149402--1149478 Score: 93
Period size: 28 Copynumber: 2.8 Consensus size: 27
1149392 TCACAATCGA
1149402 GGATACTCCAACCTCGTTATTTCATC-AG
1 GGATACTCCAACCTCGTTATTTC--CGAG
* *
1149430 GGATACTCCAACCCCGTTACTTCCGAG
1 GGATACTCCAACCTCGTTATTTCCGAG
*
1149457 GGAACACTCCAACCTCGTTATT
1 GG-ATACTCCAACCTCGTTATT
1149479 ATCTCCAAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
26 1 0.02
27 4 0.10
28 37 0.88
ACGTcount: A:0.25, C:0.32, G:0.16, T:0.27
Consensus pattern (27 bp):
GGATACTCCAACCTCGTTATTTCCGAG
Found at i:1152155 original size:13 final size:13
Alignment explanation
Indices: 1152137--1152163 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1152127 ACGATGTTCT
1152137 TTGTATCGATACA
1 TTGTATCGATACA
1152150 TTGTATCGATACA
1 TTGTATCGATACA
1152163 T
1 T
1152164 GGGTTACTAT
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:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1156602 original size:20 final size:19
Alignment explanation
Indices: 1156577--1156647 Score: 61
Period size: 20 Copynumber: 3.5 Consensus size: 19
1156567 CCCTTATTTT
1156577 TATCGATACACATGAAAATG
1 TATCGATACACATG-AAATG
* * *
1156597 TATCGACACAAATTGCAATG
1 TATCGATACACA-TGAAATG
* *
1156617 TATTGATACATCATGTGAATG
1 TATCGATACA-CATG-AAATG
1156638 TATCGATACA
1 TATCGATACA
1156648 AGTCATTGGC
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
20 24 0.60
21 16 0.40
ACGTcount: A:0.39, C:0.15, G:0.15, T:0.30
Consensus pattern (19 bp):
TATCGATACACATGAAATG
Found at i:1157688 original size:21 final size:20
Alignment explanation
Indices: 1157662--1157717 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 20
1157652 TACTAGTGAC
1157662 TTGTATCGATACATTCACATA
1 TTGTATCGATACATTCA-ATA
* *
1157683 TTGTATCGATACAATGCATTA
1 TTGTATCGATAC-ATTCAATA
1157704 TT-TATCGATACATT
1 TTGTATCGATACATT
1157718 TTCATGTGTA
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
19 2 0.06
20 9 0.29
21 16 0.52
22 4 0.13
ACGTcount: A:0.32, C:0.16, G:0.11, T:0.41
Consensus pattern (20 bp):
TTGTATCGATACATTCAATA
Found at i:1158081 original size:30 final size:30
Alignment explanation
Indices: 1158028--1158429 Score: 201
Period size: 30 Copynumber: 13.4 Consensus size: 30
1158018 CAAATTTTAC
* **
1158028 CCTCAGTTGACTGTATTTAGTCAAGTCTTT
1 CCTCATTTGACTGTATTCGGTCAAGTCTTT
* * * *
1158058 CCTCATTTGATTGTACTCGGTCAAATCTTA
1 CCTCATTTGACTGTATTCGGTCAAGTCTTT
* * * * *
1158088 CC-CCTCTTGATTGTATTCGATCAAGACCTT
1 CCTCAT-TTGACTGTATTCGGTCAAGTCTTT
* * * *
1158118 CCTCATTTGACTGTATTTGATCAAAT-TTGAC
1 CCTCATTTGACTGTATTCGGTCAAGTCTT--T
* **
1158149 CCTCGTTTGACTGTATTCATTCAAGTCTTT
1 CCTCATTTGACTGTATTCGGTCAAGTCTTT
* * *
1158179 CCTCATTGGACTGTACTCGGTCAAATCTTAT
1 CCTCATTTGACTGTATTCGGTCAAGTCTT-T
* * ** *
1158210 CC-C-TCTTGACTATATTCAGTCAAAACTAT
1 CCTCAT-TTGACTGTATTCGGTCAAGTCTTT
* * * * * *
1158239 CCTTATTTGACTATACTCGATTGAA-TCTTA
1 CCTCATTTGACTGTATTCG-GTCAAGTCTTT
* * *
1158269 CCTC-TCCTGACTGTATTCGGTCAAGACTAT
1 CCTCAT-TTGACTGTATTCGGTCAAGTCTTT
* * * *
1158299 CCTTATTTGATTGTATTCGGTAAAGTCTTA
1 CCTCATTTGACTGTATTCGGTCAAGTCTTT
1158329 CC-C-TGCTTGACTGTATTCGGTCAAGTC-TT
1 CCTCAT--TTGACTGTATTCGGTCAAGTCTTT
* * * * *
1158358 CTTCATTTGACTGTACTCGATCAAATCTTA
1 CCTCATTTGACTGTATTCGGTCAAGTCTTT
* * * * *
1158388 CCCCATTTAACTATATTCGGTTAAGTTTTT
1 CCTCATTTGACTGTATTCGGTCAAGTCTTT
*
1158418 CTTCATTTGACT
1 CCTCATTTGACT
1158430 ATACTTGTTC
Statistics
Matches: 269, Mismatches: 85, Indels: 36
0.69 0.22 0.09
Matches are distributed among these distances:
28 1 0.00
29 31 0.12
30 203 0.75
31 32 0.12
32 2 0.01
ACGTcount: A:0.22, C:0.23, G:0.13, T:0.41
Consensus pattern (30 bp):
CCTCATTTGACTGTATTCGGTCAAGTCTTT
Found at i:1158123 original size:60 final size:60
Alignment explanation
Indices: 1158017--1158449 Score: 296
Period size: 60 Copynumber: 7.2 Consensus size: 60
1158007 TTGTATTTAG
* * * * * *
1158017 TCAAATTTTA-CCCTCAGTTGACTGTATT-TAGTCAAGTCTTTCCTCATTTGATTGTACTCGG
1 TCAAATCTTACCCCTC--TTGACTGTATTCGA-TCAAGACCTTCCTCATTTGACTGTACTCGA
* * *
1158078 TCAAATCTTACCCCTCTTGATTGTATTCGATCAAGACCTTCCTCATTTGACTGTATTTGA
1 TCAAATCTTACCCCTCTTGACTGTATTCGATCAAGACCTTCCTCATTTGACTGTACTCGA
* * * *
1158138 TCAAAT-TTGA-CCCTCGTTTGACTGTATTC-ATTCAAGTCTTTCCTCATTGGACTGTACTCGG
1 TCAAATCTT-ACCCCTC--TTGACTGTATTCGA-TCAAGACCTTCCTCATTTGACTGTACTCGA
* * * * *
1158199 TCAAATCTTATCCCTCTTGACTATATTC-AGTCAA-AACTATCCTTATTTGACTATACTCGA
1 TCAAATCTTACCCCTCTTGACTGTATTCGA-TCAAGACCT-TCCTCATTTGACTGTACTCGA
** * * * * * * *
1158259 TTGAATCTTACCTCTCCTGACTGTATTCGGTCAAGA-CTATCCTTATTTGATTGTATTCGG
1 TCAAATCTTACCCCTCTTGACTGTATTCGATCAAGACCT-TCCTCATTTGACTGTACTCGA
* * *
1158319 T-AAAGTCTTA-CCCTGCTTGACTGTATTCGGTCAAG-TCTTCTTCATTTGACTGTACTCGA
1 TCAAA-TCTTACCCCT-CTTGACTGTATTCGATCAAGACCTTCCTCATTTGACTGTACTCGA
* * * * *** * * * *
1158378 TCAAATCTTACCCCAT-TTAACTATATTCGGTTAAGTTTTTCTTCATTTGACTATACTTGT
1 TCAAATCTTACCCC-TCTTGACTGTATTCGATCAAGACCTTCCTCATTTGACTGTACTCGA
1158438 TCAAATCTTACC
1 TCAAATCTTACC
1158450 TTGATTGATT
Statistics
Matches: 303, Mismatches: 51, Indels: 37
0.77 0.13 0.09
Matches are distributed among these distances:
59 51 0.17
60 186 0.61
61 54 0.18
62 12 0.04
ACGTcount: A:0.23, C:0.23, G:0.13, T:0.41
Consensus pattern (60 bp):
TCAAATCTTACCCCTCTTGACTGTATTCGATCAAGACCTTCCTCATTTGACTGTACTCGA
Found at i:1158226 original size:121 final size:119
Alignment explanation
Indices: 1158017--1158449 Score: 405
Period size: 121 Copynumber: 3.6 Consensus size: 119
1158007 TTGTATTTAG
*
1158017 TCAAATTTTACCCTCAG-TTGACTGTATTTAGTCAAGTCTTTCCTCATTTGATTGTACTCGGTCA
1 TCAAA-TTTACCCTC-GTTTGACTGTATTCAGTCAAGTCTTTCCTCATTTGATTGTACTCGGTCA
* * * *
1158081 AATCTTACCCCTCTTGATTGTATTCGATCAAGACCTTCCTCATTTGACTGTATTTGA
64 AATCTTA-CCCTCTTGACTGTATTCGATCAAGAACTTCCTCATTTGACTGTACTCGA
* * *
1158138 TCAAATTTGACCCTCGTTTGACTGTATTCATTCAAGTCTTTCCTCATTGGACTGTACTCGGTCAA
1 TCAAATTT-ACCCTCGTTTGACTGTATTCAGTCAAGTCTTTCCTCATTTGATTGTACTCGGTCAA
* * *
1158203 ATCTTATCCCTCTTGACTATATTC-AGTCAA-AACTATCCTTATTTGACTATACTCGA
65 ATCTTA-CCCTCTTGACTGTATTCGA-TCAAGAACT-TCCTCATTTGACTGTACTCGA
** * * * * * *
1158259 TTGAATCTTA-CCTC-TCCTGACTGTATTCGGTCAAGACTATCCTTATTTGATTGTATTCGGT-A
1 TCAAAT-TTACCCTCGT-TTGACTGTATTCAGTCAAGTCTTTCCTCATTTGATTGTACTCGGTCA
* * *
1158321 AAGTCTTACCCTGCTTGACTGTATTCGGTCAAG-TCTTCTTCATTTGACTGTACTCGA
64 AA-TCTTACCCT-CTTGACTGTATTCGATCAAGAACTTCCTCATTTGACTGTACTCGA
* * * * * * * * * * *
1158378 TCAAATCTTACCC-CATTTAACTATATTCGGTTAAGTTTTTCTTCATTTGACTATACTTGTTCAA
1 TCAAAT-TTACCCTCGTTTGACTGTATTCAGTCAAGTCTTTCCTCATTTGATTGTACTCGGTCAA
1158442 ATCTTACC
65 ATCTTACC
1158450 TTGATTGATT
Statistics
Matches: 254, Mismatches: 45, Indels: 28
0.78 0.14 0.09
Matches are distributed among these distances:
119 73 0.29
120 77 0.30
121 102 0.40
122 2 0.01
ACGTcount: A:0.23, C:0.23, G:0.13, T:0.41
Consensus pattern (119 bp):
TCAAATTTACCCTCGTTTGACTGTATTCAGTCAAGTCTTTCCTCATTTGATTGTACTCGGTCAAA
TCTTACCCTCTTGACTGTATTCGATCAAGAACTTCCTCATTTGACTGTACTCGA
Found at i:1159243 original size:33 final size:33
Alignment explanation
Indices: 1159201--1159282 Score: 139
Period size: 33 Copynumber: 2.5 Consensus size: 33
1159191 GTCGTTGGGC
1159201 ACAATGTATCGATACAATTCTTCATATATCGA-T
1 ACAATGTATCGATACAATTCTTCATATATC-ATT
*
1159234 ACAATGTATCGATACAATTCTTCATGTATCATT
1 ACAATGTATCGATACAATTCTTCATATATCATT
1159267 ACAATGTATCGATACA
1 ACAATGTATCGATACA
1159283 TTACCTTATG
Statistics
Matches: 47, Mismatches: 1, Indels: 2
0.94 0.02 0.04
Matches are distributed among these distances:
32 1 0.02
33 46 0.98
ACGTcount: A:0.37, C:0.18, G:0.10, T:0.35
Consensus pattern (33 bp):
ACAATGTATCGATACAATTCTTCATATATCATT
Found at i:1159245 original size:13 final size:13
Alignment explanation
Indices: 1159227--1159251 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1159217 ATTCTTCATA
1159227 TATCGATACAATG
1 TATCGATACAATG
1159240 TATCGATACAAT
1 TATCGATACAAT
1159252 TCTTCATGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.16, G:0.12, T:0.32
Consensus pattern (13 bp):
TATCGATACAATG
Found at i:1159262 original size:20 final size:20
Alignment explanation
Indices: 1159204--1159263 Score: 62
Period size: 20 Copynumber: 3.4 Consensus size: 20
1159194 GTTGGGCACA
1159204 ATGTATCGATACAATTCTTC
1 ATGTATCGATACAATTCTTC
*
1159224 ATATATCGATAC-A------
1 ATGTATCGATACAATTCTTC
1159237 ATGTATCGATACAATTCTTC
1 ATGTATCGATACAATTCTTC
1159257 ATGTATC
1 ATGTATC
1159264 ATTACAATGT
Statistics
Matches: 31, Mismatches: 2, Indels: 14
0.66 0.04 0.30
Matches are distributed among these distances:
13 11 0.35
14 1 0.03
19 1 0.03
20 18 0.58
ACGTcount: A:0.33, C:0.18, G:0.10, T:0.38
Consensus pattern (20 bp):
ATGTATCGATACAATTCTTC
Found at i:1159389 original size:13 final size:13
Alignment explanation
Indices: 1159371--1159397 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1159361 TACAATGAAC
1159371 ATGTATCGATACA
1 ATGTATCGATACA
1159384 ATGTATCGATACA
1 ATGTATCGATACA
1159397 A
1 A
1159398 GGCATGATGT
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:0.41, C:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1160050 original size:21 final size:22
Alignment explanation
Indices: 1160021--1160078 Score: 57
Period size: 21 Copynumber: 2.7 Consensus size: 22
1160011 CAATTTTTAA
* *
1160021 CTCCGTTTT-AATAAAACATTT
1 CTCCTTTTTAAATAAAAAATTT
*
1160042 CTCCTTTTTTAAAAAAAAAATTT
1 CTCC-TTTTTAAATAAAAAATTT
*
1160065 C-CCTTTTTGAATAA
1 CTCCTTTTTAAATAA
1160079 TCCCCCCCTT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
21 13 0.43
22 6 0.20
23 11 0.37
ACGTcount: A:0.36, C:0.17, G:0.03, T:0.43
Consensus pattern (22 bp):
CTCCTTTTTAAATAAAAAATTT
Found at i:1163681 original size:79 final size:79
Alignment explanation
Indices: 1163577--1163746 Score: 259
Period size: 79 Copynumber: 2.2 Consensus size: 79
1163567 GATAAAGACG
* * * * * *
1163577 GGGTTGGAGTAGCCCCTCAAAAATAATGGGGCTGGAGTATCCCCGATTATGAAAAATTAATGTTC
1 GGGTTGGAGTATCCACTCAAAAATAACGAGGCTGGAGTATCCCCGAGTATGAAAAATCAATGTTC
1163642 TAGAAATAAAATCA
66 TAGAAATAAAATCA
* * *
1163656 GGGTTGGGGTATCCACTCGAAAATAACGAGGTTGGAGTATCCCCGAGTATGAAAAATCAATGTTC
1 GGGTTGGAGTATCCACTCAAAAATAACGAGGCTGGAGTATCCCCGAGTATGAAAAATCAATGTTC
1163721 TAGAAATAAAATCA
66 TAGAAATAAAATCA
1163735 GGGTTGGAGTAT
1 GGGTTGGAGTAT
1163747 TCCCAATGGT
Statistics
Matches: 81, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
79 81 1.00
ACGTcount: A:0.35, C:0.14, G:0.25, T:0.25
Consensus pattern (79 bp):
GGGTTGGAGTATCCACTCAAAAATAACGAGGCTGGAGTATCCCCGAGTATGAAAAATCAATGTTC
TAGAAATAAAATCA
Found at i:1163770 original size:130 final size:130
Alignment explanation
Indices: 1163636--1163879 Score: 285
Period size: 130 Copynumber: 1.9 Consensus size: 130
1163626 TGAAAAATTA
* * *
1163636 ATGTTCTAGAAATAAAATCAGGGTTGGGGTATCCACTCGA-AAATAACGAGGTTGGAGTATCCCC
1 ATGTTCTAGAAATAAAACCAGGGTTAGAGTATCCACT-GAGAAATAACGAGGTTGGAGTATCCCC
* * *
1163700 GAGTATGAAAAATCAATGTTCTAGAAATAAAA-TCAGGGTTGGAGTATTCCCAATGGTAGAAAAT
65 AAGTATGAAAAATCAATATTCTAAAAATAAAACT-AGGGTTGGAGTATTCCCAATGGTAGAAAAT
1163764 CG
129 CG
* * ** * * * * *
1163766 ATGTTTTAGAAATAAAACCGGGGTTAGAGTATCTTCTTAGAAATAACGGGGTTTGAGTCTCTCCA
1 ATGTTCTAGAAATAAAACCAGGGTTAGAGTATCCACTGAGAAATAACGAGGTTGGAGTATCCCCA
* * * *
1163831 ATTGTGAAAAATCGATATTTTAAAAATAAAACTAGGGTTGGAGTATTCC
66 AGTATGAAAAATCAATATTCTAAAAATAAAACTAGGGTTGGAGTATTCC
1163880 TTCGAAAATA
Statistics
Matches: 93, Mismatches: 19, Indels: 4
0.80 0.16 0.03
Matches are distributed among these distances:
129 1 0.01
130 91 0.98
131 1 0.01
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.29
Consensus pattern (130 bp):
ATGTTCTAGAAATAAAACCAGGGTTAGAGTATCCACTGAGAAATAACGAGGTTGGAGTATCCCCA
AGTATGAAAAATCAATATTCTAAAAATAAAACTAGGGTTGGAGTATTCCCAATGGTAGAAAATCG
Found at i:1163978 original size:28 final size:28
Alignment explanation
Indices: 1163945--1164013 Score: 113
Period size: 28 Copynumber: 2.5 Consensus size: 28
1163935 ATAAAATCGA
1163945 GGTTGGAGTATCCCCTC-AGAAATAACGG
1 GGTTGGAGTATCCCCTCGA-AAATAACGG
*
1163973 GGTTGGAGTATCCCCTCGAAAATAATGG
1 GGTTGGAGTATCCCCTCGAAAATAACGG
1164001 GGTTGGAGTATCC
1 GGTTGGAGTATCC
1164014 TTGATTGTGG
Statistics
Matches: 39, Mismatches: 1, Indels: 2
0.93 0.02 0.05
Matches are distributed among these distances:
28 38 0.97
29 1 0.03
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.25
Consensus pattern (28 bp):
GGTTGGAGTATCCCCTCGAAAATAACGG
Found at i:1163984 original size:79 final size:77
Alignment explanation
Indices: 1163735--1163987 Score: 260
Period size: 79 Copynumber: 3.2 Consensus size: 77
1163725 AATAAAATCA
* * *
1163735 GGGTTGGAGTATTCCCAATGGTA-G-AAAATCGATGTTTTAGAAATAAAACCGGGGTTAGAGTAT
1 GGGTTGGAGTATCCCCAAT--TATGAAAAATCGATGTTTTA-AAATAAAA-CGAGGTTGGAGTAT
** *
1163798 CTTCTTAGAAATAACG
62 CCCCTCAGAAATAACG
* * * * * * *
1163814 GGGTTTGAGTCTCTCCAATTGTGAAAAATCGATATTTTAAAAATAAAACTAGGGTTGGAGTATTC
1 GGGTTGGAGTATCCCCAATTATGAAAAATCGATGTTTT-AAAATAAAACGA-GGTTGGAGTATCC
*
1163879 CTTC-GAAAATAACG
64 CCTCAG-AAATAACG
* *
1163893 AGATTGGAGTATCCCCAATTATGAAAAATCGATGTTTTGAAAATAAAATCGAGGTTGGAGTATCC
1 GGGTTGGAGTATCCCCAATTATGAAAAATCGATGTTTT-AAAATAAAA-CGAGGTTGGAGTATCC
1163958 CCTCAGAAATAACG
64 CCTCAGAAATAACG
1163972 GGGTTGGAGTATCCCC
1 GGGTTGGAGTATCCCC
1163988 TCGAAAATAA
Statistics
Matches: 140, Mismatches: 27, Indels: 14
0.77 0.15 0.08
Matches are distributed among these distances:
77 1 0.01
78 3 0.02
79 132 0.94
80 4 0.03
ACGTcount: A:0.34, C:0.14, G:0.23, T:0.29
Consensus pattern (77 bp):
GGGTTGGAGTATCCCCAATTATGAAAAATCGATGTTTTAAAATAAAACGAGGTTGGAGTATCCCC
TCAGAAATAACG
Found at i:1163993 original size:107 final size:107
Alignment explanation
Indices: 1163865--1164200 Score: 431
Period size: 107 Copynumber: 3.1 Consensus size: 107
1163855 AATAAAACTA
* * * * * * * *
1163865 GGGTTGGAGTATTCCTTCGAAAATAACGAGATTGGAGTATCCCCAATTATGAAAAATCGATGTTT
1 GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCTCGATTGTGAAAAATTGATGTTT
* * * *
1163930 TGAAAATAAAATCGAGGTTGGAGTATCCCCTCAGAAATAACG
66 TGGAAATAAAACCGAGGTTGGAGTATCCCCTTAGAAATAATG
* * * *
1163972 GGGTTGGAGTATCCCCTCGAAAATAATGGGGTTGGAGTATCCTTGATTGTGGAAATTTGATGTTT
1 GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCTCGATTGTGAAAAATTGATGTTT
* * * *
1164037 TGGAAACAAAACCGGGGTTGGAGTATTCCCTTAGAAATAATA
66 TGGAAATAAAACCGAGGTTGGAGTATCCCCTTAGAAATAATG
* * *
1164079 GGGTTTGAGTATCCCCCCAAAAATAACGGGGTTGGAGTATCCTCGATTGTGAAAAATTGATGTTT
1 GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCTCGATTGTGAAAAATTGATGTTT
* *
1164144 TGGAAATAAAACCAAGGTTGGAGTATCCCCTTGGAAATAATG
66 TGGAAATAAAACCGAGGTTGGAGTATCCCCTTAGAAATAATG
*
1164186 GGGTTTGAGTA-CCCC
1 GGGTTGGAGTATCCCC
1164201 GATTGTGGGA
Statistics
Matches: 196, Mismatches: 33, Indels: 1
0.85 0.14 0.00
Matches are distributed among these distances:
106 4 0.02
107 192 0.98
ACGTcount: A:0.31, C:0.15, G:0.26, T:0.29
Consensus pattern (107 bp):
GGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCTCGATTGTGAAAAATTGATGTTT
TGGAAATAAAACCGAGGTTGGAGTATCCCCTTAGAAATAATG
Found at i:1175614 original size:21 final size:21
Alignment explanation
Indices: 1175573--1175616 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1175563 CTCCCCTTTA
* *
1175573 TCTCCCCCGTTTATTAATAAT
1 TCTCCCCCGTTAATCAATAAT
1175594 TCTCCCCC-TTAATCAAGTAAT
1 TCTCCCCCGTTAATCAA-TAAT
1175615 TC
1 TC
1175617 ATATCAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 6 0.30
21 14 0.70
ACGTcount: A:0.25, C:0.32, G:0.05, T:0.39
Consensus pattern (21 bp):
TCTCCCCCGTTAATCAATAAT
Found at i:1177433 original size:13 final size:13
Alignment explanation
Indices: 1177415--1177440 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1177405 ATAATCACCC
1177415 TGTATCGATACAA
1 TGTATCGATACAA
1177428 TGTATCGATACAA
1 TGTATCGATACAA
1177441 AGAAAAATGT
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1187990 original size:28 final size:28
Alignment explanation
Indices: 1187937--1188010 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
1187927 ATAAAGCCGG
*** * **
1187937 GGTTGGAGTATCCCCTCGGAAGTAACGT
1 GGTTGGAGTATCCCCGATGAAATAACAA
1187965 GGTTGGAGTATCCCCGATGAAATAACAA
1 GGTTGGAGTATCCCCGATGAAATAACAA
*
1187993 GGTTGGAGTATCCTCGAT
1 GGTTGGAGTATCCCCGAT
1188011 TGTGAAAAAT
Statistics
Matches: 39, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 39 1.00
ACGTcount: A:0.26, C:0.19, G:0.30, T:0.26
Consensus pattern (28 bp):
GGTTGGAGTATCCCCGATGAAATAACAA
Found at i:1188063 original size:52 final size:51
Alignment explanation
Indices: 1187993--1188378 Score: 240
Period size: 52 Copynumber: 7.4 Consensus size: 51
1187983 GAAATAACAA
* * * * *
1187993 GGTTGGAGTATCCTCGATTGTGAAAAATTGGTATTTTTGGAAATAAAATCAG
1 GGTTGGAGTATCCCCGATTATGAAAAATTAGT-GTTTTGGAAATAAAATCGG
* * * * * * *
1188045 AGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTCGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT-ATGAAAAATTAGTGTTTTGGAAATAAAATCGG
* * * *
1188097 GGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAAAACCGG
1 GGTTGGAGTATCCCCGATTAT-GAAAAATTAGTGTTTTGGAAATAAAATCGG
* * * * * *
1188149 GATTGGAATATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGGAAATAAAATCGG
** *** * **** * *
1188200 GGTTGGAGTATCCCCTCGAAAAT-AACGGGGTTGGAGTATCCCCGATGAT-CAA-CGG
1 GGTTGGAGTAT-CCC-CGATTATGAA--AAATT--AGTGTTTTGGA-AATAAAATCGG
* *
1188255 GGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAA-AAATTAGTG--TTTTGGAAATAAAATCGG
* * * *
1188309 AGTTGGAGTAACCCCGATTAT-AGAAAATTAGTGTTTTGAAAATAAAATCGA
1 GGTTGGAGTATCCCCGATTATGA-AAAATTAGTGTTTTGGAAATAAAATCGG
* *
1188360 AGTTGGAATATCCCCGATT
1 GGTTGGAGTATCCCCGATT
1188379 GTGGAGAATT
Statistics
Matches: 252, Mismatches: 67, Indels: 31
0.72 0.19 0.09
Matches are distributed among these distances:
51 67 0.27
52 98 0.39
53 36 0.14
54 28 0.11
55 14 0.06
56 7 0.03
57 2 0.01
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGGAAATAAAATCGG
Found at i:1188234 original size:263 final size:263
Alignment explanation
Indices: 1187883--1188383 Score: 756
Period size: 263 Copynumber: 1.9 Consensus size: 263
1187873 TCGAAAATAA
* * * *
1187883 CGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTAT
1 CGGGATTGGAATATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTAT
* * * *
1187948 CCCCTCGGAAGTAACGTGGTTGGAGTATCCCCGATGAAAT-AACAAGGTTGGAGTATCCTCGATT
66 CCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATG--ATCAACAAGGTTGGAGTATCCCCGATT
*
1188012 GTGAA-AAATTGGT-ATTTTTGGAAATAAAATCAGAGTTGGAGTATCCCCGATTAAAGGAAAATT
129 GTGAAGAAATTGGTGATTTTTGGAAATAAAATCAGAGTTGGAGTAACCCCGATTAAA-GAAAATT
* ** *
1188075 GGTGTTTCGAAAATAAAACCGGGGTTGGAGTATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAA
193 AGTGTTTCGAAAATAAAACCGAAGTTGGAATATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAA
1188140 TAAAAC
258 TAAAAC
* *
1188146 CGGGATTGGAATATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGTCGGGGTTGGAGTAT
1 CGGGATTGGAATATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTAT
**
1188211 CCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGATCAACGGGGTTGGAGTATCCCCGATTGT
66 CCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGATCAACAAGGTTGGAGTATCCCCGATTGT
* * *
1188276 GAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTGGAGTAACCCCGATTATAGAAAATTAGT
131 GAAGAAATTGGTGATTTTTGGAAATAAAATCAGAGTTGGAGTAACCCCGATTAAAGAAAATTAGT
* *
1188341 GTTTTGAAAATAAAATCGAAGTTGGAATATCCCCGATTGTGGA
196 GTTTCGAAAATAAAACCGAAGTTGGAATATCCCCGATTGTGGA
1188384 GAATTGAGAA
Statistics
Matches: 213, Mismatches: 22, Indels: 6
0.88 0.09 0.02
Matches are distributed among these distances:
261 2 0.01
262 26 0.12
263 147 0.69
264 38 0.18
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (263 bp):
CGGGATTGGAATATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTAT
CCCCTCGAAAATAACGGGGTTGGAGTATCCCCGATGATCAACAAGGTTGGAGTATCCCCGATTGT
GAAGAAATTGGTGATTTTTGGAAATAAAATCAGAGTTGGAGTAACCCCGATTAAAGAAAATTAGT
GTTTCGAAAATAAAACCGAAGTTGGAATATCCCCGATTGTGGAAAAATTAGTGTTTTAGCAATAA
AAC
Found at i:1188261 original size:27 final size:26
Alignment explanation
Indices: 1188197--1188272 Score: 107
Period size: 27 Copynumber: 2.8 Consensus size: 26
1188187 GAAATAAAGT
*
1188197 CGGGGTTGGAGTATCCCCTCGAAAATAA
1 CGGGGTTGGAGTAT-CCC-CGATAATAA
*
1188225 CGGGGTTGGAGTATCCCCGATGATCAA
1 CGGGGTTGGAGTATCCCCGATAAT-AA
1188252 CGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
1188273 TGTGAAGAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 3
0.90 0.04 0.06
Matches are distributed among these distances:
26 5 0.11
27 26 0.58
28 14 0.31
ACGTcount: A:0.22, C:0.22, G:0.33, T:0.22
Consensus pattern (26 bp):
CGGGGTTGGAGTATCCCCGATAATAA
Found at i:1190780 original size:33 final size:33
Alignment explanation
Indices: 1190722--1190788 Score: 89
Period size: 33 Copynumber: 2.0 Consensus size: 33
1190712 AAAATTTCCA
*** *
1190722 AATGTATCGATACAAAGATCCATGTATTGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
1190755 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
1190788 A
1 A
1190789 TTTCCTTGGC
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
33 29 1.00
ACGTcount: A:0.43, C:0.15, G:0.15, T:0.27
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:1190832 original size:19 final size:19
Alignment explanation
Indices: 1190808--1190881 Score: 130
Period size: 19 Copynumber: 3.9 Consensus size: 19
1190798 CAGCAGCTAA
*
1190808 TTATGTATCGATACAATAC
1 TTATGTATCGATACAAAAC
*
1190827 TTATGTATCAATACAAAAC
1 TTATGTATCGATACAAAAC
1190846 TTATGTATCGATACAAAAC
1 TTATGTATCGATACAAAAC
1190865 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
1190882 TTGTTGAATT
Statistics
Matches: 52, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 52 1.00
ACGTcount: A:0.42, C:0.15, G:0.09, T:0.34
Consensus pattern (19 bp):
TTATGTATCGATACAAAAC
Found at i:1191683 original size:55 final size:55
Alignment explanation
Indices: 1191606--1192175 Score: 655
Period size: 55 Copynumber: 10.1 Consensus size: 55
1191596 TGAGGAGTAA
*** *
1191606 AAAG-TGCCACCAACTCAAGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTG
1 AAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTG
* *
1191660 AAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTTTGGGGACTG
1 AAAGATGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGACTG
* * **
1191715 AAAGGTGCCACCAACTTGTGTGCGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTG
1 AAAGATGCCACCAACTTGTGTGGGCTTTG-AAAG-----GTGTCCTGCTCTTTGAGGACTG
* * * *
1191776 AAAAATGCCACCAACCTGTGTGGGATTTAAAAGGTGTCCTGCTCTTTGAGGACTGG
1 AAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACT-G
*
1191832 AAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGGGGACTG
1 AAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTG
* * ** *
1191886 AAAGGTGCCACCAACCTGTGTGGGCTTTGAAAAGAAAAAGCATCATGCTCTTTGAGGACTG
1 AAAGATGCCACCAACTTGTGTGGGCTTTG-AAAG-----GTGTCCTGCTCTTTGAGGACTG
* **
1191947 AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTG
1 AAAGATGCCACCAACTTGTGTGGGCTTTG-AAAG-----GTGTCCTGCTCTTTGAGGACTG
* * * *
1192008 AAAAATGCCACCAACCTGTGTAGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGG
1 AAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACT-G
1192064 AAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGG
1 AAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACT-G
*
1192119 AAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGGGGACTG
1 AAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTG
1192173 AAA
1 AAA
1192176 AGCGGAAGGA
Statistics
Matches: 458, Mismatches: 40, Indels: 36
0.86 0.07 0.07
Matches are distributed among these distances:
54 14 0.03
55 277 0.60
56 14 0.03
57 2 0.00
60 8 0.02
61 143 0.31
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (55 bp):
AAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTG
Found at i:1191720 original size:26 final size:26
Alignment explanation
Indices: 1191632--1191721 Score: 67
Period size: 26 Copynumber: 3.3 Consensus size: 26
1191622 AAGTGGGCTT
* *
1191632 TGAAAGGCGTCCTGCTCTTTGAGGAC
1 TGAAAGGTGTCCTGCTCTTTGGGGAC
** *
1191658 TGAAAGGTG-CCACCAACTTGTGTGGG-C
1 TGAAAGGTGTCCTGC-TCTT-TG-GGGAC
*
1191685 TTTAAGAGGTGTCCTGCTCTTTGGGGAC
1 -TGAA-AGGTGTCCTGCTCTTTGGGGAC
1191713 TGAAAGGTG
1 TGAAAGGTG
1191722 CCACCAACTT
Statistics
Matches: 47, Mismatches: 10, Indels: 14
0.66 0.14 0.20
Matches are distributed among these distances:
25 3 0.06
26 16 0.34
27 9 0.19
28 8 0.17
29 8 0.17
30 3 0.06
ACGTcount: A:0.20, C:0.19, G:0.33, T:0.28
Consensus pattern (26 bp):
TGAAAGGTGTCCTGCTCTTTGGGGAC
Found at i:1191880 original size:171 final size:169
Alignment explanation
Indices: 1191585--1192176 Score: 743
Period size: 171 Copynumber: 3.5 Consensus size: 169
1191575 AATAAAGTGT
* * * ** *
1191585 ATCCTTCTCATTGAGGAGT-AAAAAGTGCCACCAA-CTCAAGTGGGCTTTGAAAGGCGTCCTGCT
1 ATCCTGCTCTTTGAGGACTGAAAAA-TGCCACCAACCT-GTGTGGGCTTTAAAAGGCGTCCTGCT
*
1191648 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGGGGAC
64 CTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTAA-AGGTGTCCTGCTCTTTGGGGAC
*
1191713 TGAAAGGTGCCACCAACTTGTGTGCGCTTTGAAAAGAAAAAGC
127 TGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGC
* *
1191756 ATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGATTTAAAAGGTGTCCTGCTCT
1 ATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGCGTCCTGCTCT
1191821 TTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGGGGACTG
66 TTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTT-AAAGGTGTCCTGCTCTTTGGGGACTG
*
1191886 AAAGGTGCCACCAACCTGTGTGGGCTTTGAAAAGAAAAAGC
129 AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGC
* ** * *
1191927 ATCATGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCC
1 ATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTT-AAAAG-----GCGTCC
* * *
1191992 TGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTAGGCTTTAAAAGGTGTCCTGCTCTTTGA
60 TGCTCTTTGAGGACTG-AAAATGCCACCAACTTGTGTGGGCTTT-AAAGGTGTCCTGCTCTTTGG
* *
1192057 GGACTGGAAA-ATGCCACCAACTTGTGTGGGCTTTG-AAAG-----GT
123 GGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGC
* * * * *
1192098 GTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCT
1 ATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGCGTCCTGCTCT
*
1192163 TTGGGGACTGAAAA
66 TTGAGGACTGAAAA
1192177 GCGGAAGGAG
Statistics
Matches: 375, Mismatches: 34, Indels: 31
0.85 0.08 0.07
Matches are distributed among these distances:
164 4 0.01
165 19 0.05
170 4 0.01
171 230 0.61
172 18 0.05
176 5 0.01
177 91 0.24
178 4 0.01
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (169 bp):
ATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGCGTCCTGCTCT
TTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTAAAGGTGTCCTGCTCTTTGGGGACTGAA
AGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGC
Found at i:1192011 original size:232 final size:229
Alignment explanation
Indices: 1191605--1192149 Score: 882
Period size: 232 Copynumber: 2.4 Consensus size: 229
1191595 TTGAGGAGTA
*** *
1191605 AAAAGTGCCACCAACTCAAGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCA
1 AAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCA
* ** * *
1191670 CCAACTTGTGTGGGCTTT---AAGAGGTGTCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTT
65 CCAACTTGTGTGGGCTTTGAAAAGAAGCATCATGCTCTTTGAGGACTGAAAGGTGCCACCAACTT
1191732 GTGTGCGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGT
130 GTGTGCGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGT
*
1191797 GGGATTTAAAAGGTGTCCTGCTCTTTGAGGACTGG
195 AGGATTTAAAAGGTGTCCTGCTCTTTGAGGACTGG
*
1191832 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGGGGACTGAAAGGTGCCAC
1 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCAC
*
1191897 CAACCTGTGTGGGCTTTGAAAAGAAAAAGCATCATGCTCTTTGAGGACTGAAAGGTGCCACCAAC
66 CAACTTGTGTGGGCTTTGAAAAG---AAGCATCATGCTCTTTGAGGACTGAAAGGTGCCACCAAC
*
1191962 TTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGT
128 TTGTGTGCGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGT
*
1192027 GTAGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGG
193 GTAGGATTTAAAAGGTGTCCTGCTCTTTGAGGACTGG
*
1192064 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGGAAA-ATGCCA
1 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACT-GAAAGGTGCCA
1192128 CCAACTTGTGTGGGCTTTGAAA
65 CCAACTTGTGTGGGCTTTGAAA
1192150 GGTGTCCTGC
Statistics
Matches: 294, Mismatches: 17, Indels: 9
0.92 0.05 0.03
Matches are distributed among these distances:
226 72 0.24
227 4 0.01
229 3 0.01
232 211 0.72
233 4 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.26
Consensus pattern (229 bp):
AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCAC
CAACTTGTGTGGGCTTTGAAAAGAAGCATCATGCTCTTTGAGGACTGAAAGGTGCCACCAACTTG
TGTGCGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTA
GGATTTAAAAGGTGTCCTGCTCTTTGAGGACTGG
Found at i:1192121 original size:27 final size:27
Alignment explanation
Indices: 1192037--1192121 Score: 66
Period size: 27 Copynumber: 3.1 Consensus size: 27
1192027 GTAGGCTTTA
1192037 AAAGGTGTCCTGCTCTTTGAGGACTGG
1 AAAGGTGTCCTGCTCTTTGAGGACTGG
* ** * * * *
1192064 AAA-ATG-CCACCAACTTGTGTGGGCTTTG
1 AAAGGTGTCCTGC-TCTT-TGAGGAC-TGG
1192092 AAAGGTGTCCTGCTCTTTGAGGACTGG
1 AAAGGTGTCCTGCTCTTTGAGGACTGG
1192119 AAA
1 AAA
1192122 ATGCCACCAA
Statistics
Matches: 39, Mismatches: 14, Indels: 10
0.62 0.22 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.13
27 13 0.33
28 10 0.26
29 5 0.13
30 3 0.08
ACGTcount: A:0.24, C:0.19, G:0.29, T:0.28
Consensus pattern (27 bp):
AAAGGTGTCCTGCTCTTTGAGGACTGG
Found at i:1195895 original size:55 final size:55
Alignment explanation
Indices: 1195820--1196388 Score: 673
Period size: 55 Copynumber: 10.1 Consensus size: 55
1195810 TGAGGAGTAA
* *
1195820 AAAG-TGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTG
1 AAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTG
* *
1195874 AAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTTTGGGGACTG
1 AAAGATGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGACTG
* **
1195929 AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTG
1 AAAGATGCCACCAACTTGTGTGGGCTTTG-AAAG-----GTGTCCTGCTCTTTGAGGACTG
* * *
1195990 AAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGG
1 AAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACT-G
*
1196046 AAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGGGGACTG
1 AAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTG
* * **
1196100 AAAGGTGCCACCAACCTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTG
1 AAAGATGCCACCAACTTGTGTGGGCTTTG-AAAG-----GTGTCCTGCTCTTTGAGGACTG
* ***
1196161 AAAGGTGCCACCAACTTGTGT-GGCTTTGAAAAGAAAAAGCAACCTGCTCTTTGAGGACTG
1 AAAGATGCCACCAACTTGTGTGGGCTTTG-AAAG-----GTGTCCTGCTCTTTGAGGACTG
* * *
1196221 AAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGG
1 AAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACT-G
* *
1196277 AAA-ATGCTACCAACTTGTGTGGGATTTGAAAGGTGTCCTGCTCTTTGAGGACTGG
1 AAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACT-G
*
1196332 AAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGGGGACTG
1 AAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTG
1196386 AAA
1 AAA
1196389 AGCGGAAGGA
Statistics
Matches: 460, Mismatches: 36, Indels: 38
0.86 0.07 0.07
Matches are distributed among these distances:
54 14 0.03
55 277 0.60
56 14 0.03
57 2 0.00
60 64 0.14
61 89 0.19
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (55 bp):
AAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTG
Found at i:1195934 original size:26 final size:26
Alignment explanation
Indices: 1195846--1195935 Score: 67
Period size: 26 Copynumber: 3.3 Consensus size: 26
1195836 GTGTGGGCTT
* *
1195846 TGAAAGGCGTCCTGCTCTTTGAGGAC
1 TGAAAGGTGTCCTGCTCTTTGGGGAC
** *
1195872 TGAAAGGTG-CCACCAACTTGTGTGGG-C
1 TGAAAGGTGTCCTGC-TCTT-TG-GGGAC
*
1195899 TTTAAGAGGTGTCCTGCTCTTTGGGGAC
1 -TGAA-AGGTGTCCTGCTCTTTGGGGAC
1195927 TGAAAGGTG
1 TGAAAGGTG
1195936 CCACCAACTT
Statistics
Matches: 47, Mismatches: 10, Indels: 14
0.66 0.14 0.20
Matches are distributed among these distances:
25 3 0.06
26 16 0.34
27 9 0.19
28 8 0.17
29 8 0.17
30 3 0.06
ACGTcount: A:0.20, C:0.19, G:0.33, T:0.28
Consensus pattern (26 bp):
TGAAAGGTGTCCTGCTCTTTGGGGAC
Found at i:1195959 original size:29 final size:29
Alignment explanation
Indices: 1195872--1195960 Score: 82
Period size: 29 Copynumber: 3.2 Consensus size: 29
1195862 CTTTGAGGAC
1195872 TGAAAGGTGCCACCAACTTGTGTGGGCTT
1 TGAAAGGTGCCACCAACTTGTGTGGGCTT
** *
1195901 T-AAGAGGTGTCCTGC-TCTT-TG-GGGAC--
1 TGAA-AGGTG-CCACCAACTTGTGTGGG-CTT
1195927 TGAAAGGTGCCACCAACTTGTGTGGGCTT
1 TGAAAGGTGCCACCAACTTGTGTGGGCTT
1195956 TGAAA
1 TGAAA
1195961 AGAAAAAGCA
Statistics
Matches: 45, Mismatches: 6, Indels: 18
0.65 0.09 0.26
Matches are distributed among these distances:
25 3 0.07
26 9 0.20
27 8 0.18
28 8 0.18
29 14 0.31
30 3 0.07
ACGTcount: A:0.21, C:0.19, G:0.31, T:0.28
Consensus pattern (29 bp):
TGAAAGGTGCCACCAACTTGTGTGGGCTT
Found at i:1196031 original size:171 final size:169
Alignment explanation
Indices: 1195799--1196389 Score: 761
Period size: 171 Copynumber: 3.5 Consensus size: 169
1195789 AATAAAGTGT
* * * *
1195799 ATCCTTCTCATTGAGGAGT-AAAAAGTGCCACCAA-CTCGTGTGGGCTTTGAAAGGCGTCCTGCT
1 ATCCTGCTCTTTGAGGACTGAAAAA-TGCCACCAACCT-GTGTGGGCTTTAAAAGGCGTCCTGCT
*
1195862 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGGGGAC
64 CTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTAA-AGGTGTCCTGCTCTTTGGGGAC
1195927 TGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGC
127 TGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGC
*
1195970 ATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCT
1 ATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGCGTCCTGCTCT
1196035 TTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGGGGACTG
66 TTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTT-AAAGGTGTCCTGCTCTTTGGGGACTG
*
1196100 AAAGGTGCCACCAACCTGTGTGGGCTTTGAAAAGAAAAAGC
129 AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGC
** * **
1196141 ATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGT-GGCTTTGAAAAGAAAAAGCAACC
1 ATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTT-AAAAG-----GCGTCC
* *
1196205 TGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGTGTCCTGCTCTTTGA
60 TGCTCTTTGAGGACTG-AAAATGCCACCAACTTGTGTGGGCTTT-AAAGGTGTCCTGCTCTTTGG
* * * *
1196270 GGACTGGAAA-ATGCTACCAACTTGTGTGGGATTTG-AAAG-----GT
123 GGACT-GAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGC
* * * * *
1196311 GTCCTGCTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCT
1 ATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGCGTCCTGCTCT
*
1196376 TTGGGGACTGAAAA
66 TTGAGGACTGAAAA
1196390 GCGGAAGGAG
Statistics
Matches: 377, Mismatches: 30, Indels: 33
0.86 0.07 0.08
Matches are distributed among these distances:
164 4 0.01
165 18 0.05
170 48 0.13
171 196 0.52
172 13 0.03
175 5 0.01
176 89 0.24
177 4 0.01
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (169 bp):
ATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGCGTCCTGCTCT
TTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTAAAGGTGTCCTGCTCTTTGGGGACTGAA
AGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGC
Found at i:1196263 original size:231 final size:229
Alignment explanation
Indices: 1195819--1196388 Score: 904
Period size: 231 Copynumber: 2.5 Consensus size: 229
1195809 TTGAGGAGTA
* *
1195819 AAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCA
1 AAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCA
* ** *
1195884 CCAACTTGTGTGGGCTTT---AAGAGGTGTCCTGCTCTTTGGGGACTGAAAGGTGCCACCAACTT
65 CCAACTTGTGTGGGCTTTGAAAAGAAGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTT
*
1195946 GTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGT
130 GTGTGGGCTTTGAAAAGAAAAAGCAACCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGT
1196011 GGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGG
195 GGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGG
*
1196046 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGGGGACTGAAAGGTGCCAC
1 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCAC
*
1196111 CAACCTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAAC
66 CAACTTGTGTGGGCTTTGAAAAG---AAGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAAC
1196176 TTGTGT-GGCTTTGAAAAGAAAAAGCAACCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGT
128 TTGTGTGGGCTTTGAAAAGAAAAAGCAACCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGT
1196240 GTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGG
193 GTGGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGG
* * *
1196277 AAAATGCTACCAACTTGTGTGGGATTTGAAAGGTGTCCTGCTCTTTGAGGACTGGAAA-ATGCCA
1 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACT-GAAAGGTGCCA
** *
1196341 CCAACTTGTGTGGGCTTTG-AAAG--GTGTCCTGCTCTTTGGGGACTGAAA
65 CCAACTTGTGTGGGCTTTGAAAAGAAGCATCCTGCTCTTTGAGGACTGAAA
1196389 AGCGGAAGGA
Statistics
Matches: 319, Mismatches: 17, Indels: 16
0.91 0.05 0.05
Matches are distributed among these distances:
225 22 0.07
226 74 0.23
227 4 0.01
229 3 0.01
230 4 0.01
231 167 0.52
232 45 0.14
ACGTcount: A:0.25, C:0.20, G:0.28, T:0.27
Consensus pattern (229 bp):
AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCAC
CAACTTGTGTGGGCTTTGAAAAGAAGCATCCTGCTCTTTGAGGACTGAAAGGTGCCACCAACTTG
TGTGGGCTTTGAAAAGAAAAAGCAACCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTG
GGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGG
Found at i:1196334 original size:27 final size:27
Alignment explanation
Indices: 1196250--1196334 Score: 68
Period size: 27 Copynumber: 3.1 Consensus size: 27
1196240 GTGGGCTTTA
1196250 AAAGGTGTCCTGCTCTTTGAGGACTGG
1 AAAGGTGTCCTGCTCTTTGAGGACTGG
* ** * *
1196277 AAA-ATGCTACCAACT-TGTGTG-GGATTTG
1 AAAGGTG-T-CCTGCTCT-T-TGAGGACTGG
1196305 AAAGGTGTCCTGCTCTTTGAGGACTGG
1 AAAGGTGTCCTGCTCTTTGAGGACTGG
1196332 AAA
1 AAA
1196335 ATGCCACCAA
Statistics
Matches: 41, Mismatches: 10, Indels: 14
0.63 0.15 0.22
Matches are distributed among these distances:
26 4 0.10
27 18 0.44
28 15 0.37
29 4 0.10
ACGTcount: A:0.25, C:0.16, G:0.29, T:0.29
Consensus pattern (27 bp):
AAAGGTGTCCTGCTCTTTGAGGACTGG
Found at i:1197400 original size:12 final size:13
Alignment explanation
Indices: 1197368--1197428 Score: 72
Period size: 13 Copynumber: 4.8 Consensus size: 13
1197358 CTTTTCTCTC
*
1197368 TTTTTCTTTG-TT
1 TTTTTTTTTGCTT
*
1197380 TTGTTTTTTTGTTT
1 TT-TTTTTTTGCTT
1197394 TTTTTTTTTGC-T
1 TTTTTTTTTGCTT
*
1197406 TTTTTTTTTGCTC
1 TTTTTTTTTGCTT
1197419 TTTTTTTTTG
1 TTTTTTTTTG
1197429 AAGAGAAGGT
Statistics
Matches: 43, Mismatches: 3, Indels: 5
0.84 0.06 0.10
Matches are distributed among these distances:
12 14 0.33
13 25 0.58
14 4 0.09
ACGTcount: A:0.00, C:0.07, G:0.10, T:0.84
Consensus pattern (13 bp):
TTTTTTTTTGCTT
Found at i:1210016 original size:52 final size:51
Alignment explanation
Indices: 1209877--1210099 Score: 187
Period size: 52 Copynumber: 4.3 Consensus size: 51
1209867 GAAATAACAA
* * * * * * *
1209877 GGTTGGAGTATCCTCGACTGTGAAAAATTGGTATTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTAGT-GTTTTGAAAATAAAACCGG
* * * * *
1209929 AGTTGGAGTATCCCCGATTAAAGGAAAATTGGTGTTTCGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT-ATGAAAAATTAGTGTTTTGAAAATAAAACCGG
* * *
1209981 GGTTGGAGTATCCCCGATTGTGGAAAACTTAGTGTTTT-AGCAATAAAACCCGG
1 GGTTGGAGTATCCCCGATTAT-GAAAAATTAGTGTTTTGA-AAATAAAA-CCGG
* * * * * * **
1210034 GATTGGAATATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGAAAATAAAACCGG
1210085 GGTTGGAGTATCCCC
1 GGTTGGAGTATCCCC
1210100 TCGGAAATAA
Statistics
Matches: 135, Mismatches: 31, Indels: 11
0.76 0.18 0.06
Matches are distributed among these distances:
51 17 0.13
52 86 0.64
53 32 0.24
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGAAAATAAAACCGG
Found at i:1210105 original size:264 final size:264
Alignment explanation
Indices: 1209767--1210268 Score: 758
Period size: 264 Copynumber: 1.9 Consensus size: 264
1209757 TCGAAAATAA
* * * *
1209767 CGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGCCGGGGTTGGAGTAT
1 CGGGATTGGAATATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTAT
* * *
1209832 CCCCTCGGAAGTAACGTGGTTAGAGTATCCCCGATGAAAT-AACAAGGTTGGAGTATCCTCGACT
66 CCCCTCGGAAATAACGGGGTTAGAGTATCCCCGATG--ATCAACAAGGTTGGAGTATCCCCGACT
*
1209896 GTGAA-AAATTGGT-ATTTTTGGAAATAAAATCGGAGTTGGAGTATCCCCGATTAAAGGAAAATT
129 GTGAAGAAATTGGTGATTTTTGGAAATAAAATCGGAGTTGGAGTAACCCCGATTAAA-GAAAATT
* ** *
1209959 GGTGTTTCGAAAATAAAACCGGGGTTGGAGTATCCCCGATTGTGGAAAACTTAGTGTTTTAGCAA
193 AGTGTTTCGAAAATAAAACCGAAGTTGGAATATCCCCGATTGTGGAAAACTTAGTGTTTTAGCAA
1210024 TAAAACC
258 TAAAACC
* *
1210031 CGGGATTGGAATATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGTCGGGGTTGGAGTAT
1 CGGGATTGGAATATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTAT
*** *
1210096 CCCCTCGGAAATAACGGGGTTAGAGTATCCCCGATGATCAATGGGGTTGGAGTATCCCCGATTGT
66 CCCCTCGGAAATAACGGGGTTAGAGTATCCCCGATGATCAACAAGGTTGGAGTATCCCCGACTGT
* *
1210161 GAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTGGAGTAACCCCGATTATAGAAAATTAGT
131 GAAGAAATTGGTGATTTTTGGAAATAAAATCGGAGTTGGAGTAACCCCGATTAAAGAAAATTAGT
* *
1210226 GTTTTGAAAATAAAATCGAAGTTGGAATATCCCCGATTGTGGA
196 GTTTCGAAAATAAAACCGAAGTTGGAATATCCCCGATTGTGGA
1210269 GAATTGAGAA
Statistics
Matches: 213, Mismatches: 22, Indels: 6
0.88 0.09 0.02
Matches are distributed among these distances:
262 2 0.01
263 24 0.11
264 148 0.69
265 39 0.18
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (264 bp):
CGGGATTGGAATATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAGCCGGGGTTGGAGTAT
CCCCTCGGAAATAACGGGGTTAGAGTATCCCCGATGATCAACAAGGTTGGAGTATCCCCGACTGT
GAAGAAATTGGTGATTTTTGGAAATAAAATCGGAGTTGGAGTAACCCCGATTAAAGAAAATTAGT
GTTTCGAAAATAAAACCGAAGTTGGAATATCCCCGATTGTGGAAAACTTAGTGTTTTAGCAATAA
AACC
Found at i:1210249 original size:51 final size:53
Alignment explanation
Indices: 1210141--1210263 Score: 153
Period size: 51 Copynumber: 2.3 Consensus size: 53
1210131 GATCAATGGG
* * * *
1210141 GTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAGAAATTAGTG-TTTTTGAAAATAAAATCGAA
*
1210195 GTTGGAGTAACCCCGATTAT--AGAAAATTAGTG-TTTTGAAAATAAAATCGAA
1 GTTGGAGTATCCCCGATTATGAAG-AAATTAGTGTTTTTGAAAATAAAATCGAA
*
1210246 GTTGGAATATCCCCGATT
1 GTTGGAGTATCCCCGATT
1210264 GTGGAGAATT
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
51 33 0.54
52 2 0.03
53 8 0.13
54 18 0.30
ACGTcount: A:0.33, C:0.11, G:0.24, T:0.32
Consensus pattern (53 bp):
GTTGGAGTATCCCCGATTATGAAGAAATTAGTGTTTTTGAAAATAAAATCGAA
Found at i:1212644 original size:13 final size:13
Alignment explanation
Indices: 1212626--1212651 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1212616 ACAAAGATCC
1212626 ATGTATCGATACA
1 ATGTATCGATACA
1212639 ATGTATCGATACA
1 ATGTATCGATACA
1212652 CAGAAAAATG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1212647 original size:33 final size:33
Alignment explanation
Indices: 1212605--1212671 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1212595 AAAATTTCCA
***
1212605 AATGTATCGATACAAAGATCCATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
*
1212638 AATGTATCGATACACAGAAAAATGTATCGATAC
1 AATGTATCGATACAAAGAAAAATGTATCGATAC
1212671 A
1 A
1212672 TTTCCTTGGC
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.43, C:0.16, G:0.15, T:0.25
Consensus pattern (33 bp):
AATGTATCGATACAAAGAAAAATGTATCGATAC
Found at i:1212715 original size:19 final size:18
Alignment explanation
Indices: 1212691--1212758 Score: 83
Period size: 19 Copynumber: 3.9 Consensus size: 18
1212681 CAGTAGCTAA
1212691 TTATGTATCGATACAATAC
1 TTATGTATCGATACAA-AC
1212710 TTATGTATCGATAC--A-
1 TTATGTATCGATACAAAC
1212725 -T-TGTATCGATACAAAAC
1 TTATGTATCGATAC-AAAC
1212742 TTATGTATCGATACAAA
1 TTATGTATCGATACAAA
1212759 TTGTTGAATT
Statistics
Matches: 43, Mismatches: 0, Indels: 13
0.77 0.00 0.23
Matches are distributed among these distances:
13 11 0.26
14 1 0.02
16 2 0.05
18 4 0.09
19 25 0.58
ACGTcount: A:0.38, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATGTATCGATACAAAC
Found at i:1212731 original size:13 final size:13
Alignment explanation
Indices: 1212713--1212737 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1212703 ACAATACTTA
1212713 TGTATCGATACAT
1 TGTATCGATACAT
1212726 TGTATCGATACA
1 TGTATCGATACA
1212738 AAACTTATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1212735 original size:32 final size:32
Alignment explanation
Indices: 1212694--1212756 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
1212684 TAGCTAATTA
*
1212694 TGTATCGATACAATACTTATGTATCGATACAT
1 TGTATCGATACAAAACTTATGTATCGATACAT
1212726 TGTATCGATACAAAACTTATGTATCGATACA
1 TGTATCGATACAAAACTTATGTATCGATACA
1212757 AATTGTTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.37, C:0.16, G:0.13, T:0.35
Consensus pattern (32 bp):
TGTATCGATACAAAACTTATGTATCGATACAT
Found at i:1213558 original size:55 final size:55
Alignment explanation
Indices: 1213483--1214052 Score: 646
Period size: 55 Copynumber: 10.1 Consensus size: 55
1213473 TGAGGAGTAA
* *
1213483 AAAG-TGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTG
1 AAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTG
* * *
1213537 AAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTTTGGGGACTA
1 AAAGATGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGACTG
* **
1213592 AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTG
1 AAAGATGCCACCAACTTGTGTGGGCTTTG-AAAG-----GTGTCCTGCTCTTTGAGGACTG
* * * *
1213653 AAAAATGCCACCAACCTGTGTTGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGG
1 AAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACT-G
*
1213709 AAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGGGGACTG
1 AAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTG
* * ** * *
1213763 AAAGGTGCCACCAACCTGTGTGGGCTTTGAAAAGAAAAAGCATCATGCTCTTTAAGGACTG
1 AAAGATGCCACCAACTTGTGTGGGCTTTG-AAAG-----GTGTCCTGCTCTTTGAGGACTG
* **
1213824 AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTG
1 AAAGATGCCACCAACTTGTGTGGGCTTTG-AAAG-----GTGTCCTGCTCTTTGAGGACTG
* * * * *
1213885 AAAAATTCCACCAACCTGTGTAGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGG
1 AAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACT-G
*
1213941 AAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGTGGACTGG
1 AAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACT-G
*
1213996 AAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGGGGACTG
1 AAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTG
1214050 AAA
1 AAA
1214053 AGCGGAAGGA
Statistics
Matches: 455, Mismatches: 43, Indels: 36
0.85 0.08 0.07
Matches are distributed among these distances:
54 14 0.03
55 277 0.61
56 14 0.03
57 2 0.00
60 8 0.02
61 140 0.31
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (55 bp):
AAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTG
Found at i:1213757 original size:171 final size:169
Alignment explanation
Indices: 1213462--1214053 Score: 727
Period size: 171 Copynumber: 3.5 Consensus size: 169
1213452 AATAAAGTGT
* * * *
1213462 ATCCTTCTCATTGAGGAGT-AAAAAGTGCCACCAA-CTCGTGTGGGCTTTGAAAGGCGTCCTGCT
1 ATCCTGCTCTTTGAGGACTGAAAAA-TGCCACCAACCT-GTGTGGGCTTTAAAAGGCGTCCTGCT
*
1213525 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGGGGAC
64 CTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTAA-AGGTGTCCTGCTCTTTGGGGAC
1213590 TAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGC
127 TAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGC
* *
1213633 ATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTTGGCTTTAAAAGGTGTCCTGCTCT
1 ATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGCGTCCTGCTCT
*
1213698 TTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGGGGACTG
66 TTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTT-AAAGGTGTCCTGCTCTTTGGGGACTA
*
1213763 AAAGGTGCCACCAACCTGTGTGGGCTTTGAAAAGAAAAAGC
129 AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGC
* * ** * *
1213804 ATCATGCTCTTTAAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCC
1 ATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTT-AAAAG-----GCGTCC
* * * *
1213869 TGCTCTTTGAGGACTGAAAAATTCCACCAACCTGTGTAGGCTTTAAAAGGTGTCCTGCTCTTTGA
60 TGCTCTTTGAGGACTG-AAAATGCCACCAACTTGTGTGGGCTTT-AAAGGTGTCCTGCTCTTTGG
*
1213934 GGACTGGAAAA--TGCCACCAACTTGTGTGGGCTTTG-AAAG-----GT
123 GGACT--AAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGC
* * * * * *
1213975 GTCCTGCTCTTTGTGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCT
1 ATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGCGTCCTGCTCT
*
1214040 TTGGGGACTGAAAA
66 TTGAGGACTGAAAA
1214054 GCGGAAGGAG
Statistics
Matches: 372, Mismatches: 36, Indels: 33
0.84 0.08 0.07
Matches are distributed among these distances:
164 4 0.01
165 19 0.05
170 4 0.01
171 229 0.62
172 18 0.05
176 5 0.01
177 90 0.24
179 3 0.01
ACGTcount: A:0.25, C:0.20, G:0.27, T:0.27
Consensus pattern (169 bp):
ATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGCGTCCTGCTCT
TTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTAAAGGTGTCCTGCTCTTTGGGGACTAAA
AGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGC
Found at i:1213898 original size:232 final size:229
Alignment explanation
Indices: 1213482--1214026 Score: 882
Period size: 232 Copynumber: 2.4 Consensus size: 229
1213472 TTGAGGAGTA
* *
1213482 AAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCA
1 AAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCA
* ** * **
1213547 CCAACTTGTGTGGGCTTT---AAGAGGTGTCCTGCTCTTTGGGGACTAAAAGGTGCCACCAACTT
65 CCAACTTGTGTGGGCTTTGAAAAGAAGCATCATGCTCTTTAAGGACTAAAAGGTGCCACCAACTT
1213609 GTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGT
130 GTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGT
*
1213674 TGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGG
195 AGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGG
*
1213709 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGGGGACTGAAAGGTGCCAC
1 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCAC
* *
1213774 CAACCTGTGTGGGCTTTGAAAAGAAAAAGCATCATGCTCTTTAAGGACTGAAAGGTGCCACCAAC
66 CAACTTGTGTGGGCTTTGAAAAG---AAGCATCATGCTCTTTAAGGACTAAAAGGTGCCACCAAC
*
1213839 TTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAAAATTCCACCAACCTGT
128 TTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGT
1213904 GTAGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGG
193 GTAGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGG
* *
1213941 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGTGGACTGGAAA-ATGCCA
1 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACT-GAAAGGTGCCA
1214005 CCAACTTGTGTGGGCTTTGAAA
65 CCAACTTGTGTGGGCTTTGAAA
1214027 GGTGTCCTGC
Statistics
Matches: 295, Mismatches: 16, Indels: 9
0.92 0.05 0.03
Matches are distributed among these distances:
226 74 0.25
227 4 0.01
229 3 0.01
232 210 0.71
233 4 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (229 bp):
AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCAC
CAACTTGTGTGGGCTTTGAAAAGAAGCATCATGCTCTTTAAGGACTAAAAGGTGCCACCAACTTG
TGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTA
GGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGG
Found at i:1213990 original size:28 final size:28
Alignment explanation
Indices: 1213958--1214042 Score: 77
Period size: 28 Copynumber: 3.1 Consensus size: 28
1213948 CACCAACTTG
1213958 TGTGGGCTTTGAAAGGTGTCCTGCTCTT
1 TGTGGGCTTTGAAAGGTGTCCTGCTCTT
* * * ** *
1213986 TGTGGAC-TGGAAA-ATG-CCACCAACTT
1 TGTGGGCTTTGAAAGGTGTCCTGC-TCTT
1214012 GTGTGGGCTTTGAAAGGTGTCCTGCTCTT
1 -TGTGGGCTTTGAAAGGTGTCCTGCTCTT
1214041 TG
1 TG
1214043 GGGACTGAAA
Statistics
Matches: 40, Mismatches: 12, Indels: 10
0.65 0.19 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.12
27 11 0.28
28 13 0.32
29 5 0.12
30 3 0.08
ACGTcount: A:0.16, C:0.19, G:0.31, T:0.34
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGTGTCCTGCTCTT
Found at i:1214016 original size:27 final size:27
Alignment explanation
Indices: 1213934--1214017 Score: 73
Period size: 27 Copynumber: 3.1 Consensus size: 27
1213924 TGCTCTTTGA
1213934 GGACTGGAAAATGCCACCAACTTGTGT
1 GGACTGGAAAATGCCACCAACTTGTGT
* * * ** *
1213961 GGGCTTTGAAAGGTGTCCTGC-TCTT-TGT
1 GGAC-TGGAAA-ATG-CCACCAACTTGTGT
1213989 GGACTGGAAAATGCCACCAACTTGTGT
1 GGACTGGAAAATGCCACCAACTTGTGT
1214016 GG
1 GG
1214018 GCTTTGAAAG
Statistics
Matches: 40, Mismatches: 12, Indels: 10
0.65 0.19 0.16
Matches are distributed among these distances:
25 3 0.08
26 5 0.12
27 13 0.32
28 11 0.28
29 5 0.12
30 3 0.08
ACGTcount: A:0.23, C:0.20, G:0.30, T:0.27
Consensus pattern (27 bp):
GGACTGGAAAATGCCACCAACTTGTGT
Found at i:1215020 original size:52 final size:50
Alignment explanation
Indices: 1214906--1215028 Score: 140
Period size: 52 Copynumber: 2.4 Consensus size: 50
1214896 CAATTCTCCG
* * * *
1214906 CAATCGGGGATATTCCAACTCCGATTTTATTTTCAAGACACTAATTTTCTA
1 CAATCGGGGATACTCCAAC-CCGATTTTATTTCCAAAACACCAATTTTCTA
* *
1214957 TAATCGGGGATACTCCAACCCTGATTTTATTTCCAAAAATACCAATTTT-TCA
1 CAATCGGGGATACTCCAACCC-GATTTTATTTCC-AAAACACCAATTTTCT-A
*
1215009 CAATCGAGGATACTCCAACC
1 CAATCGGGGATACTCCAACC
1215029 TCGTTATTTC
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
50 2 0.03
51 29 0.48
52 30 0.49
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.33
Consensus pattern (50 bp):
CAATCGGGGATACTCCAACCCGATTTTATTTCCAAAACACCAATTTTCTA
Found at i:1215047 original size:28 final size:28
Alignment explanation
Indices: 1215011--1215082 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
1215001 ATTTTTCACA
* *
1215011 ATCGAGGATACTCCAA-CCTCGTTATTTC
1 ATCGGGGATACTCCAACCCT-GTTACTTC
1215039 ATCGGGGATACTCCAACCCTGTTACTTC
1 ATCGGGGATACTCCAACCCTGTTACTTC
*
1215067 -TGAGGGGATACTCCAA
1 AT-CGGGGATACTCCAA
1215083 TCCCGATTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
27 1 0.03
28 35 0.90
29 3 0.08
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCTGTTACTTC
Found at i:1217483 original size:79 final size:79
Alignment explanation
Indices: 1217372--1217573 Score: 235
Period size: 79 Copynumber: 2.6 Consensus size: 79
1217362 GAGATAATAA
* * * * ** * *
1217372 CGGGGTTGGAGTGTTCCCTTGAAAATAACGGGGCTGGAGTATCCCCGGTTGTGAGAAATCGATGA
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAAT-A
1217437 -TTAGAAAAAAAAAT
65 TTTAGAAAAAAAAAT
*
1217451 CGGGATTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATAT
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATAT
* ** * *
1217516 TTTGGGAATAAAGT
66 TTAGAAAAAAAAAT
* * *
1217530 CGGGGTTGGAGTATCCCCTCGGAACTAACGTGGTTGGAGTATCC
1 CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCC
1217574 TCGATGAAAT
Statistics
Matches: 104, Mismatches: 18, Indels: 2
0.84 0.15 0.02
Matches are distributed among these distances:
78 1 0.01
79 103 0.99
ACGTcount: A:0.29, C:0.16, G:0.29, T:0.25
Consensus pattern (79 bp):
CGGGGTTGGAGTATCCCCTCGAAAATAACGGGGTTGGAGTATCCCCAATTATGAGAAATCAATAT
TTAGAAAAAAAAAT
Found at i:1217586 original size:28 final size:27
Alignment explanation
Indices: 1217533--1217605 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 27
1217523 ATAAAGTCGG
* **
1217533 GGTTGGAGTATCCCCTCG-GAACTAACGT
1 GGTTGGAGTAT--CCTCGAGAAATAACAA
1217561 GGTTGGAGTATCCTCGATGAAATAACAA
1 GGTTGGAGTATCCTCGA-GAAATAACAA
1217589 GGTTGGAGTATCCTCGA
1 GGTTGGAGTATCCTCGA
1217606 CTGTGAAAAA
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
26 5 0.12
28 35 0.88
ACGTcount: A:0.26, C:0.19, G:0.29, T:0.26
Consensus pattern (27 bp):
GGTTGGAGTATCCTCGAGAAATAACAA
Found at i:1217728 original size:52 final size:51
Alignment explanation
Indices: 1217589--1217974 Score: 179
Period size: 52 Copynumber: 7.4 Consensus size: 51
1217579 GAAATAACAA
* * * * * * * *
1217589 GGTTGGAGTATCCTCGACTGTGAAAAATTGGTATTTTTGGAAATAAAATCAG
1 GGTTGGAGTATCCCCGATTATGAAAAATTAGT-GTTTTGAAAATAAAACCGG
* * * * * *
1217641 AGTTGGAGTACCCCCGATTAAAGGAAAATTGGTGTTTCGAAAATAAAACCGG
1 GGTTGGAGTATCCCCGATT-ATGAAAAATTAGTGTTTTGAAAATAAAACCGG
* * *
1217693 GGTTGGAGTATCCCCGATTGTGGAAAACTTAGTGTTTT-AGCAATAAAACCGG
1 GGTTGGAGTATCCCCGATTAT-GAAAAATTAGTGTTTTGA-AAATAAAACCGG
* * * * * * **
1217745 GATTGGAATATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGTCGG
1 GGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGAAAATAAAACCGG
** *** * ** ** * *
1217796 GGTTGGAGTATCCCCTCGAAAAT-AACGGGGTTAGAGTATCCCCGATGAT-CAA-TGG
1 GGTTGGAGTAT-CCC-CGATTATGAA--AAATTAGTGT-T--TTGAAAATAAAACCGG
* * * *
1217851 GGTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGG
1 GGTTGGAGTATCCCCGATTATGAA-AAATTAGTG--TTTTGAAAATAAAACCGG
* * * *
1217905 AGTTGGAGTAACCCCGATTAT-AGAAAATTAGTGTTTTGAAAATAAAATCGA
1 GGTTGGAGTATCCCCGATTATGA-AAAATTAGTGTTTTGAAAATAAAACCGG
* *
1217956 AGTTGGAATATCCCCGATT
1 GGTTGGAGTATCCCCGATT
1217975 GTGGAGAATT
Statistics
Matches: 243, Mismatches: 74, Indels: 35
0.69 0.21 0.10
Matches are distributed among these distances:
51 64 0.26
52 95 0.39
53 35 0.14
54 30 0.12
55 15 0.06
56 1 0.00
57 3 0.01
ACGTcount: A:0.33, C:0.13, G:0.25, T:0.29
Consensus pattern (51 bp):
GGTTGGAGTATCCCCGATTATGAAAAATTAGTGTTTTGAAAATAAAACCGG
Found at i:1217802 original size:51 final size:52
Alignment explanation
Indices: 1217681--1217810 Score: 154
Period size: 51 Copynumber: 2.5 Consensus size: 52
1217671 GGTGTTTCGA
* * * * *
1217681 AAATAAAACCGGGGTTGGAGTATCCCCGATTGTGGAAAACTTAGTGTTTTAG
1 AAATAAAACCGGGGTTGGAGTATCCCCGATTATGGAAAAATCAATATTTTAG
* * * *
1217733 CAATAAAACCGGGATTGGAATATCCCCGATTAT-GAAAAATCAATATTTTGG
1 AAATAAAACCGGGGTTGGAGTATCCCCGATTATGGAAAAATCAATATTTTAG
**
1217784 AAATAAAGTCGGGGTTGGAGTATCCCC
1 AAATAAAACCGGGGTTGGAGTATCCCC
1217811 TCGAAAATAA
Statistics
Matches: 64, Mismatches: 14, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
51 35 0.55
52 29 0.45
ACGTcount: A:0.34, C:0.15, G:0.24, T:0.27
Consensus pattern (52 bp):
AAATAAAACCGGGGTTGGAGTATCCCCGATTATGGAAAAATCAATATTTTAG
Found at i:1217835 original size:263 final size:263
Alignment explanation
Indices: 1217479--1217979 Score: 729
Period size: 263 Copynumber: 1.9 Consensus size: 263
1217469 TCGAAAATAA
* * * *
1217479 CGGGGTTGGAGTATCCCCAATTATGAGAAATCAATATTTTGGGAATAAAGTCGGGGTTGGAGTAT
1 CGGGATTGGAATATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAGTCGGGGTTGGAGTAT
* * * * * *
1217544 CCCCTCGGAACTAACGTGGTTGGAGTATCCTCGATGAAAT-AACAAGGTTGGAGTATCCTCGACT
66 CCCCTCGAAAATAACGGGGTTAGAGTATCCCCGATG--ATCAACAAGGTTGGAGTATCCCCGACT
*
1217608 GTGAA-AAATTGGT-ATTTTTGGAAATAAAATCAGAGTTGGAGTACCCCCGATTAAAGGAAAATT
129 GTGAAGAAATTGGTGATTTTTGGAAATAAAATCAGAGTTGGAGTAACCCCGATTAAA-GAAAATT
* ** *
1217671 GGTGTTTCGAAAATAAAACCGGGGTTGGAGTATCCCCGATTGTGGAAAACTTAGTGTTTTAGCAA
193 AGTGTTTCGAAAATAAAACCGAAGTTGGAATATCCCCGATTGTGGAAAACTTAGTGTTTTAGCAA
1217736 TAAAAC
258 TAAAAC
*
1217742 CGGGATTGGAATATCCCCGATTATGAAAAATCAATATTTTGGAAATAAAGTCGGGGTTGGAGTAT
1 CGGGATTGGAATATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAGTCGGGGTTGGAGTAT
*** *
1217807 CCCCTCGAAAATAACGGGGTTAGAGTATCCCCGATGATCAATGGGGTTGGAGTATCCCCGATTGT
66 CCCCTCGAAAATAACGGGGTTAGAGTATCCCCGATGATCAACAAGGTTGGAGTATCCCCGACTGT
* * *
1217872 GAAGAAATTGGTGTTTTTTGGAAATAAAATCGGAGTTGGAGTAACCCCGATTATAGAAAATTAGT
131 GAAGAAATTGGTGATTTTTGGAAATAAAATCAGAGTTGGAGTAACCCCGATTAAAGAAAATTAGT
* *
1217937 GTTTTGAAAATAAAATCGAAGTTGGAATATCCCCGATTGTGGA
196 GTTTCGAAAATAAAACCGAAGTTGGAATATCCCCGATTGTGGA
1217980 GAATTGAGAA
Statistics
Matches: 210, Mismatches: 25, Indels: 6
0.87 0.10 0.02
Matches are distributed among these distances:
261 2 0.01
262 24 0.11
263 146 0.70
264 38 0.18
ACGTcount: A:0.32, C:0.14, G:0.26, T:0.28
Consensus pattern (263 bp):
CGGGATTGGAATATCCCCAATTATGAAAAATCAATATTTTGGAAATAAAGTCGGGGTTGGAGTAT
CCCCTCGAAAATAACGGGGTTAGAGTATCCCCGATGATCAACAAGGTTGGAGTATCCCCGACTGT
GAAGAAATTGGTGATTTTTGGAAATAAAATCAGAGTTGGAGTAACCCCGATTAAAGAAAATTAGT
GTTTCGAAAATAAAACCGAAGTTGGAATATCCCCGATTGTGGAAAACTTAGTGTTTTAGCAATAA
AAC
Found at i:1217859 original size:27 final size:26
Alignment explanation
Indices: 1217793--1217868 Score: 89
Period size: 27 Copynumber: 2.8 Consensus size: 26
1217783 GAAATAAAGT
*
1217793 CGGGGTTGGAGTATCCCCTCGAAAATAA
1 CGGGGTTGGAGTAT-CCC-CGATAATAA
* *
1217821 CGGGGTTAGAGTATCCCCGATGATCAA
1 CGGGGTTGGAGTATCCCCGATAAT-AA
*
1217848 TGGGGTTGGAGTATCCCCGAT
1 CGGGGTTGGAGTATCCCCGAT
1217869 TGTGAAGAAA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
26 5 0.12
27 24 0.57
28 13 0.31
ACGTcount: A:0.24, C:0.21, G:0.32, T:0.24
Consensus pattern (26 bp):
CGGGGTTGGAGTATCCCCGATAATAA
Found at i:1217960 original size:51 final size:53
Alignment explanation
Indices: 1217852--1217974 Score: 153
Period size: 51 Copynumber: 2.3 Consensus size: 53
1217842 GATCAATGGG
* * * *
1217852 GTTGGAGTATCCCCGATTGTGAAGAAATTGGTGTTTTTTGGAAATAAAATCGGA
1 GTTGGAGTATCCCCGATTATGAAGAAATTAGTG-TTTTTGAAAATAAAATCGAA
*
1217906 GTTGGAGTAACCCCGATTAT--AGAAAATTAGTG-TTTTGAAAATAAAATCGAA
1 GTTGGAGTATCCCCGATTATGAAG-AAATTAGTGTTTTTGAAAATAAAATCGAA
*
1217957 GTTGGAATATCCCCGATT
1 GTTGGAGTATCCCCGATT
1217975 GTGGAGAATT
Statistics
Matches: 61, Mismatches: 7, Indels: 5
0.84 0.10 0.07
Matches are distributed among these distances:
51 33 0.54
52 2 0.03
53 8 0.13
54 18 0.30
ACGTcount: A:0.33, C:0.11, G:0.24, T:0.32
Consensus pattern (53 bp):
GTTGGAGTATCCCCGATTATGAAGAAATTAGTGTTTTTGAAAATAAAATCGAA
Found at i:1219002 original size:55 final size:55
Alignment explanation
Indices: 1218927--1219496 Score: 655
Period size: 55 Copynumber: 10.1 Consensus size: 55
1218917 TGAGGAGTAA
* *
1218927 AAAG-TGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTG
1 AAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTG
* * *
1218981 AAAGGTGCCACCAACTTGTGTGGGCTTT-AAGAGGTGTCCTGCTCTTTGGGGACTA
1 AAAGATGCCACCAACTTGTGTGGGCTTTGAA-AGGTGTCCTGCTCTTTGAGGACTG
* **
1219036 AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTG
1 AAAGATGCCACCAACTTGTGTGGGCTTTG-AAAG-----GTGTCCTGCTCTTTGAGGACTG
* * * *
1219097 AAAAATGCCACCAACCTGTGTTGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGG
1 AAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACT-G
*
1219153 AAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGGGGACTG
1 AAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTG
* * ** *
1219207 AAAGGTGCCACCAACCTGTGTGGGCTTTGAAAAGAAAAAGCATCATGCTCTTTGAGGACTG
1 AAAGATGCCACCAACTTGTGTGGGCTTTG-AAAG-----GTGTCCTGCTCTTTGAGGACTG
* **
1219268 AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTG
1 AAAGATGCCACCAACTTGTGTGGGCTTTG-AAAG-----GTGTCCTGCTCTTTGAGGACTG
* * * * *
1219329 AAAAATTCCACCAACCTGTGTAGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGG
1 AAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACT-G
*
1219385 AAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTACTCTTTGAGGACTGG
1 AAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACT-G
*
1219440 AAA-ATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGGGGACTG
1 AAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTG
1219494 AAA
1 AAA
1219497 AGCGGAAGGA
Statistics
Matches: 456, Mismatches: 42, Indels: 36
0.85 0.08 0.07
Matches are distributed among these distances:
54 14 0.03
55 276 0.61
56 14 0.03
57 2 0.00
60 8 0.02
61 142 0.31
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.27
Consensus pattern (55 bp):
AAAGATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTG
Found at i:1219201 original size:171 final size:169
Alignment explanation
Indices: 1218906--1219497 Score: 736
Period size: 171 Copynumber: 3.5 Consensus size: 169
1218896 AATAAAGTGT
* * * *
1218906 ATCCTTCTCATTGAGGAGT-AAAAAGTGCCACCAA-CTCGTGTGGGCTTTGAAAGGCGTCCTGCT
1 ATCCTGCTCTTTGAGGACTGAAAAA-TGCCACCAACCT-GTGTGGGCTTTAAAAGGCGTCCTGCT
*
1218969 CTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTAAGAGGTGTCCTGCTCTTTGGGGAC
64 CTTTGAGGACTGAAA-ATGCCACCAACTTGTGTGGGCTTTAA-AGGTGTCCTGCTCTTTGGGGAC
1219034 TAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGC
127 TAAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGC
* *
1219077 ATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTTGGCTTTAAAAGGTGTCCTGCTCT
1 ATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGCGTCCTGCTCT
*
1219142 TTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGGGGACTG
66 TTGAGGACT-GAAAATGCCACCAACTTGTGTGGGCTTT-AAAGGTGTCCTGCTCTTTGGGGACTA
*
1219207 AAAGGTGCCACCAACCTGTGTGGGCTTTGAAAAGAAAAAGC
129 AAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGC
* ** * *
1219248 ATCATGCTCTTTGAGGACTGAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGCATCC
1 ATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTT-AAAAG-----GCGTCC
* * * *
1219313 TGCTCTTTGAGGACTGAAAAATTCCACCAACCTGTGTAGGCTTTAAAAGGTGTCCTGCTCTTTGA
60 TGCTCTTTGAGGACTG-AAAATGCCACCAACTTGTGTGGGCTTT-AAAGGTGTCCTGCTCTTTGG
*
1219378 GGACTGGAAAA--TGCCACCAACTTGTGTGGGCTTTG-AAAG-----GT
123 GGACT--AAAAGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGC
* * * * * *
1219419 GTCCTACTCTTTGAGGACTGGAAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCT
1 ATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGCGTCCTGCTCT
*
1219484 TTGGGGACTGAAAA
66 TTGAGGACTGAAAA
1219498 GCGGAAGGAG
Statistics
Matches: 374, Mismatches: 34, Indels: 33
0.85 0.08 0.07
Matches are distributed among these distances:
164 4 0.01
165 19 0.05
170 4 0.01
171 231 0.62
172 18 0.05
176 5 0.01
177 90 0.24
179 3 0.01
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.27
Consensus pattern (169 bp):
ATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTGGGCTTTAAAAGGCGTCCTGCTCT
TTGAGGACTGAAAATGCCACCAACTTGTGTGGGCTTTAAAGGTGTCCTGCTCTTTGGGGACTAAA
AGGTGCCACCAACTTGTGTGGGCTTTGAAAAGAAAAAGC
Found at i:1219342 original size:232 final size:229
Alignment explanation
Indices: 1218926--1219470 Score: 891
Period size: 232 Copynumber: 2.4 Consensus size: 229
1218916 TTGAGGAGTA
* *
1218926 AAAAGTGCCACCAACTCGTGTGGGCTTTGAAAGGCGTCCTGCTCTTTGAGGACTGAAAGGTGCCA
1 AAAA-TGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCA
* ** * *
1218991 CCAACTTGTGTGGGCTTT---AAGAGGTGTCCTGCTCTTTGGGGACTAAAAGGTGCCACCAACTT
65 CCAACTTGTGTGGGCTTTGAAAAGAAGCATCATGCTCTTTGAGGACTAAAAGGTGCCACCAACTT
1219053 GTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGT
130 GTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGT
*
1219118 TGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGG
195 AGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGG
*
1219153 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGGGGACTGAAAGGTGCCAC
1 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCAC
* *
1219218 CAACCTGTGTGGGCTTTGAAAAGAAAAAGCATCATGCTCTTTGAGGACTGAAAGGTGCCACCAAC
66 CAACTTGTGTGGGCTTTGAAAAG---AAGCATCATGCTCTTTGAGGACTAAAAGGTGCCACCAAC
*
1219283 TTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAAAATTCCACCAACCTGT
128 TTGTGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGT
1219348 GTAGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGG
193 GTAGGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGG
* *
1219385 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTACTCTTTGAGGACTGGAAA-ATGCCA
1 AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACT-GAAAGGTGCCA
1219449 CCAACTTGTGTGGGCTTTGAAA
65 CCAACTTGTGTGGGCTTTGAAA
1219471 GGTGTCCTGC
Statistics
Matches: 295, Mismatches: 16, Indels: 9
0.92 0.05 0.03
Matches are distributed among these distances:
226 74 0.25
227 4 0.01
229 3 0.01
232 210 0.71
233 4 0.01
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (229 bp):
AAAATGCCACCAACTTGTGTGGGCTTTGAAAGGTGTCCTGCTCTTTGAGGACTGAAAGGTGCCAC
CAACTTGTGTGGGCTTTGAAAAGAAGCATCATGCTCTTTGAGGACTAAAAGGTGCCACCAACTTG
TGTGGGCTTTGAAAAGAAAAAGCATCCTGCTCTTTGAGGACTGAAAAATGCCACCAACCTGTGTA
GGCTTTAAAAGGTGTCCTGCTCTTTGAGGACTGG
Found at i:1220464 original size:52 final size:50
Alignment explanation
Indices: 1220350--1220472 Score: 140
Period size: 51 Copynumber: 2.4 Consensus size: 50
1220340 CAATTCTCCG
* * * *
1220350 CAATCGGGGATATTCCAACTCCGATTTTATTTTCAAGACACTAATTTTCTA
1 CAATCGGGGATACTCCAAC-CCGATTTTATTTCCAAAACACCAATTTTCTA
* *
1220401 TAATCGGGGATACTCCAACCCTGATTTTATTTCCAAAAGTACCAATTTT-TCA
1 CAATCGGGGATACTCCAACCC-GATTTTATTTCCAAAA-CACCAATTTTCT-A
*
1220453 CAATCGAGGATACTCCAACC
1 CAATCGGGGATACTCCAACC
1220473 TCGTTATTTC
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
50 2 0.03
51 32 0.52
52 27 0.44
ACGTcount: A:0.31, C:0.24, G:0.12, T:0.33
Consensus pattern (50 bp):
CAATCGGGGATACTCCAACCCGATTTTATTTCCAAAACACCAATTTTCTA
Found at i:1220491 original size:28 final size:28
Alignment explanation
Indices: 1220455--1220526 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
1220445 ATTTTTCACA
* *
1220455 ATCGAGGATACTCCAA-CCTCGTTATTTC
1 ATCGGGGATACTCCAACCCT-GTTACTTC
1220483 ATCGGGGATACTCCAACCCTGTTACTTC
1 ATCGGGGATACTCCAACCCTGTTACTTC
*
1220511 -TGAGGGGATACTCCAA
1 AT-CGGGGATACTCCAA
1220527 TCCCGATTTT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
27 1 0.03
28 35 0.90
29 3 0.08
ACGTcount: A:0.25, C:0.28, G:0.19, T:0.28
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCCTGTTACTTC
Found at i:1220586 original size:7 final size:7
Alignment explanation
Indices: 1220574--1220601 Score: 56
Period size: 7 Copynumber: 4.0 Consensus size: 7
1220564 AATCGGGGAT
1220574 ACCCTAA
1 ACCCTAA
1220581 ACCCTAA
1 ACCCTAA
1220588 ACCCTAA
1 ACCCTAA
1220595 ACCCTAA
1 ACCCTAA
1220602 TCCCGATTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.43, C:0.43, G:0.00, T:0.14
Consensus pattern (7 bp):
ACCCTAA
Found at i:1224469 original size:13 final size:13
Alignment explanation
Indices: 1224451--1224476 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1224441 TACAGCAAGT
1224451 ATGTATCGATACA
1 ATGTATCGATACA
1224464 ATGTATCGATACA
1 ATGTATCGATACA
1224477 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1226723 original size:21 final size:21
Alignment explanation
Indices: 1226690--1226734 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
1226680 TTGCAAGTTG
*
1226690 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
1226712 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
1226732 AAA
1 AAA
1226735 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:1228558 original size:15 final size:15
Alignment explanation
Indices: 1228538--1228568 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
1228528 TAAAAATGTC
*
1228538 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
1228553 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
1228568 C
1 C
1228569 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:1230651 original size:13 final size:13
Alignment explanation
Indices: 1230633--1230658 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1230623 ACATTTTTCT
1230633 TTGTATCGATACA
1 TTGTATCGATACA
1230646 TTGTATCGATACA
1 TTGTATCGATACA
1230659 GGGTGATTAT
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:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1233229 original size:13 final size:13
Alignment explanation
Indices: 1233211--1233236 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1233201 TACAGCAAGT
1233211 ATGTATCGATACA
1 ATGTATCGATACA
1233224 ATGTATCGATACA
1 ATGTATCGATACA
1233237 CAAAAAATTG
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:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1242792 original size:15 final size:16
Alignment explanation
Indices: 1242772--1242801 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
1242762 TTCTCTTCAA
1242772 AAAAGAAAA-AAAAAC
1 AAAAGAAAACAAAAAC
1242787 AAAAGAAAACAAAAA
1 AAAAGAAAACAAAAA
1242802 AACAAAACAA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 9 0.64
16 5 0.36
ACGTcount: A:0.87, C:0.07, G:0.07, T:0.00
Consensus pattern (16 bp):
AAAAGAAAACAAAAAC
Found at i:1242818 original size:18 final size:18
Alignment explanation
Indices: 1242773--1242818 Score: 58
Period size: 18 Copynumber: 2.5 Consensus size: 18
1242763 TCTCTTCAAA
*
1242773 AAAGAAAAAAAAACAAAAG
1 AAAG-AAAAAAAACAAAAC
1242792 AAA-ACAAAAAAACAAAAC
1 AAAGA-AAAAAAACAAAAC
1242810 AAAGAAAAA
1 AAAGAAAAA
1242819 GAGAGAAAAG
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
17 1 0.04
18 19 0.79
19 4 0.17
ACGTcount: A:0.85, C:0.09, G:0.07, T:0.00
Consensus pattern (18 bp):
AAAGAAAAAAAACAAAAC
Found at i:1243917 original size:60 final size:59
Alignment explanation
Indices: 1243802--1244577 Score: 876
Period size: 59 Copynumber: 13.3 Consensus size: 59
1243792 TCCGCTTTTT
* * * *
1243802 AGTCCTCAGAGAGCAGGATGCCTTTTCCTTTTAAAAGCCCCCACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTT-CTTTT-AAAGCCCACACAAGTTGGTGGCACTTT-C
* *
1243864 AGTCCTCAAAGAGCAAGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCATTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTC
* * *
1243923 TAGTCCTCAAAGAGCAGGACGCTTTTTCTCTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 -AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTC
* * * * *
1243983 AGTCCTCAAAGAGCGGGACGCTTTTTCTCTTAAAGCCAACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTC
* * *
1244042 AGTCCTCAAAGAGCAGGACACCTTTTCTCTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTC
* * * * *
1244101 AATCCTCAAAGAGGAGGACACCTTTTCTCTTAAAGCCCACACAAGTTGGCGGCACTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTC
* *
1244160 AATCCTCAAAGAGCAGGACGCCTTTT-TTCTTAAAGCCCACACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTT-TTAAAGCCCACACAAGTTGGTGGCACTTTC
* * * * *
1244219 AGTCCTCAAAAAGCAGGATG-CTTTTGCCTTTCAAAGCCCAAACAAGTTGGTGGCACCTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTT--CTTTTAAAGCCCACACAAGTTGGTGGCACTTTC
* *
1244279 AGTCCTCAAAGAGCAGGATGCTTTTTCTTTTCAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTT-AAAGCCCACACAAGTTGGTGGCA-CTTTC
* * * *
1244340 AGTCCCCAAGGAGCAGGAC-CC----CTTTCAAAGCCCACACAAGTTGGTGGCATTTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTC
* * *
1244395 AGTCCGCAAAGAGCAGGACACC-TTTC----AAAGCCCACACAAGTTGGTGGCATTTTCC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTT-C
* *
1244450 AGTCCTCAAAGAGCAGGACACC---TC--GTAAAGCCCACACAAGTTGGTGGCACCTTTC
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCA-CTTTC
* * *
1244505 AGTCCTCAAAGAGCAGGATGCC-TTTC----AAAGCCCACACGAGTTGGTGGCACTTTTT
1 AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCAC-TTTC
* *
1244560 ACTCCTCAATGAGCAGGA
1 AGTCCTCAAAGAGCAGGA
1244578 TACACTTTAT
Statistics
Matches: 644, Mismatches: 51, Indels: 45
0.87 0.07 0.06
Matches are distributed among these distances:
53 2 0.00
54 5 0.01
55 174 0.27
56 9 0.01
57 2 0.00
58 6 0.01
59 242 0.38
60 150 0.23
61 31 0.05
62 23 0.04
ACGTcount: A:0.27, C:0.28, G:0.20, T:0.25
Consensus pattern (59 bp):
AGTCCTCAAAGAGCAGGACGCCTTTTCTTTTAAAGCCCACACAAGTTGGTGGCACTTTC
Found at i:1245314 original size:21 final size:21
Alignment explanation
Indices: 1245284--1245337 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
1245274 TATCCAAATG
1245284 TATCGATACATTTGTAGAATA
1 TATCGATACATTTGTAGAATA
* * *
1245305 TATTGATACATTTGTGGAATG
1 TATCGATACATTTGTAGAATA
1245326 TATCGATACATT
1 TATCGATACATT
1245338 CTACAAATGT
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.33, C:0.09, G:0.17, T:0.41
Consensus pattern (21 bp):
TATCGATACATTTGTAGAATA
Found at i:1245416 original size:19 final size:19
Alignment explanation
Indices: 1245392--1245446 Score: 101
Period size: 19 Copynumber: 2.9 Consensus size: 19
1245382 AATTCAACAA
1245392 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
1245411 TTTGTATCGATACATAAGT
1 TTTGTATCGATACATAAGT
*
1245430 ATTGTATCGATACATAA
1 TTTGTATCGATACATAA
1245447 TTAGCTACTG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 35 1.00
ACGTcount: A:0.35, C:0.11, G:0.15, T:0.40
Consensus pattern (19 bp):
TTTGTATCGATACATAAGT
Found at i:1245491 original size:20 final size:20
Alignment explanation
Indices: 1245466--1245520 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
1245456 GCCAAGGAAA
*
1245466 TGTATCGATACATTTTTCTG
1 TGTATCGATACATTTATCTG
** *
1245486 TGTATCGATACATGGATCTT
1 TGTATCGATACATTTATCTG
1245506 TGTATCGATACATTT
1 TGTATCGATACATTT
1245521 GGAAATTTTA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 29 1.00
ACGTcount: A:0.24, C:0.15, G:0.16, T:0.45
Consensus pattern (20 bp):
TGTATCGATACATTTATCTG
Found at i:1247981 original size:52 final size:50
Alignment explanation
Indices: 1247863--1247986 Score: 140
Period size: 51 Copynumber: 2.4 Consensus size: 50
1247853 CTCAATTCTC
* * * * *
1247863 CACAATCGGGGACATTCCAACTCCGATTTTATTTTCAAGACACTAATTTT
1 CACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTT
* * *
1247913 CTATAATCGGGGATACTCCAACTTCGATTTTATTTCCAAAAATACCAATTTTT
1 C-ACAATCGGGGATACTCCAACTCCGATTTTATTTCC-AAAACACCAA-TTTT
*
1247966 CACAATCGAGGATACTCCAAC
1 CACAATCGGGGATACTCCAAC
1247987 CTCGTTATTT
Statistics
Matches: 61, Mismatches: 10, Indels: 4
0.81 0.13 0.05
Matches are distributed among these distances:
50 1 0.02
51 30 0.49
52 25 0.41
53 5 0.08
ACGTcount: A:0.32, C:0.24, G:0.11, T:0.32
Consensus pattern (50 bp):
CACAATCGGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTT
Found at i:1248006 original size:28 final size:28
Alignment explanation
Indices: 1247970--1248046 Score: 91
Period size: 28 Copynumber: 2.8 Consensus size: 28
1247960 ATTTTTCACA
* *
1247970 ATCGAGGATACTCCAACCTCGTTATTTC
1 ATCGGGGATACTCCAACCTCGTTACTTC
*
1247998 ATCGGGGATACTCCAACCCCGTTACTTC
1 ATCGGGGATACTCCAACCTCGTTACTTC
*** *
1248026 CGAGGGGATACTCCAATCTCG
1 ATCGGGGATACTCCAACCTCG
1248047 ATTTTTTTTT
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
28 41 1.00
ACGTcount: A:0.23, C:0.31, G:0.19, T:0.26
Consensus pattern (28 bp):
ATCGGGGATACTCCAACCTCGTTACTTC
Found at i:1255624 original size:8 final size:8
Alignment explanation
Indices: 1255611--1255659 Score: 53
Period size: 8 Copynumber: 5.9 Consensus size: 8
1255601 ATTTTAAGGT
1255611 ATGAAAAA
1 ATGAAAAA
1255619 ATGAAAAAAA
1 ATG--AAAAA
*
1255629 ATTAAAAA
1 ATGAAAAA
* *
1255637 TTAAAAAA
1 ATGAAAAA
1255645 ATGAAAAA
1 ATGAAAAA
1255653 ATGAAAA
1 ATGAAAA
1255660 TTGAATGCAA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
8 27 0.79
10 7 0.21
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (8 bp):
ATGAAAAA
Found at i:1255637 original size:17 final size:18
Alignment explanation
Indices: 1255611--1255659 Score: 66
Period size: 17 Copynumber: 2.8 Consensus size: 18
1255601 ATTTTAAGGT
1255611 ATGAAAAAATGAAAAAAA
1 ATGAAAAAATGAAAAAAA
* *
1255629 AT-TAAAAAT-TAAAAAA
1 ATGAAAAAATGAAAAAAA
1255645 ATGAAAAAATGAAAA
1 ATGAAAAAATGAAAA
1255660 TTGAATGCAA
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
16 8 0.32
17 12 0.48
18 5 0.20
ACGTcount: A:0.76, C:0.00, G:0.08, T:0.16
Consensus pattern (18 bp):
ATGAAAAAATGAAAAAAA
Found at i:1259341 original size:34 final size:34
Alignment explanation
Indices: 1259296--1259486 Score: 145
Period size: 34 Copynumber: 5.6 Consensus size: 34
1259286 TTTTTTTTGC
* * * *
1259296 AAACCTCTCTTGAAGATGTTTTAATAGTTTTCAT
1 AAACCTTTCTTGAGGATGTTTTAAAAGATTTCAT
* * * **
1259330 TAGCCTTTCTTGAGGATATTTTAAGGGATTTCAT
1 AAACCTTTCTTGAGGATGTTTTAAAAGATTTCAT
* *
1259364 AAACCTTTGTTGAGGATGTTTTAAAAGGTTTCA-
1 AAACCTTTCTTGAGGATGTTTTAAAAGATTTCAT
* * * * *
1259397 CAAGCTTCTTTTAAGGATGTTTTAAAGAGATTTCAC
1 AAACCTT-TCTTGAGGATGTTTTAAA-AGATTTCAT
* * * * *
1259433 AAACCTCTCTTAAAGATGTTTTAAGAGATTTCAC
1 AAACCTTTCTTGAGGATGTTTTAAAAGATTTCAT
*
1259467 AAA-C-TTCTTGAGGATATTTT
1 AAACCTTTCTTGAGGATGTTTT
1259487 TTATCTGATT
Statistics
Matches: 124, Mismatches: 30, Indels: 8
0.77 0.19 0.05
Matches are distributed among these distances:
32 12 0.10
33 6 0.05
34 80 0.65
35 22 0.18
36 4 0.03
ACGTcount: A:0.30, C:0.13, G:0.16, T:0.41
Consensus pattern (34 bp):
AAACCTTTCTTGAGGATGTTTTAAAAGATTTCAT
Found at i:1259455 original size:69 final size:68
Alignment explanation
Indices: 1259295--1259475 Score: 193
Period size: 69 Copynumber: 2.6 Consensus size: 68
1259285 TTTTTTTTTG
* * ** * * *
1259295 CAAACCTCTCTTGAAGATGTTTTAATAGTTTTCATTAGCCTT-TCTTGAGGATATTTTAAGGGAT
1 CAAACCTCTCTTGAAGATGTTTTAAAAGATTTCACAAG-CTTCTTTTAAGGATATTTTAAGAGAT
1259359 TTCA
65 TTCA
* * * * * *
1259363 TAAACCTTTGTTGAGGATGTTTTAAAAGGTTTCACAAGCTTCTTTTAAGGATGTTTTAAAGAGAT
1 CAAACCTCTCTTGAAGATGTTTTAAAAGATTTCACAAGCTTCTTTTAAGGATATTTT-AAGAGAT
1259428 TTCA
65 TTCA
* * *
1259432 CAAACCTCTCTTAAAGATGTTTTAAGAGATTTCACAAACTTCTT
1 CAAACCTCTCTTGAAGATGTTTTAAAAGATTTCACAAGCTTCTT
1259476 GAGGATATTT
Statistics
Matches: 91, Mismatches: 20, Indels: 3
0.80 0.18 0.03
Matches are distributed among these distances:
67 3 0.03
68 42 0.46
69 46 0.51
ACGTcount: A:0.30, C:0.14, G:0.15, T:0.40
Consensus pattern (68 bp):
CAAACCTCTCTTGAAGATGTTTTAAAAGATTTCACAAGCTTCTTTTAAGGATATTTTAAGAGATT
TCA
Found at i:1262439 original size:21 final size:21
Alignment explanation
Indices: 1262406--1262446 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
1262396 CTAAGTAAAA
1262406 ATACGTATTGTATCAATACAT
1 ATACGTATTGTATCAATACAT
*
1262427 ATAC-TATTAGTATTAATACA
1 ATACGTATT-GTATCAATACA
1262447 CAAGGTTGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 14 0.78
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.39
Consensus pattern (21 bp):
ATACGTATTGTATCAATACAT
Found at i:1262511 original size:20 final size:19
Alignment explanation
Indices: 1262486--1262556 Score: 70
Period size: 20 Copynumber: 3.6 Consensus size: 19
1262476 ACCCTGAAAA
1262486 GTATCGATACACATTTAAAT
1 GTATCGATACACA-TTAAAT
* **
1262506 GTATCGATACAAATTGCAT
1 GTATCGATACACATTAAAT
**
1262525 AGTATCGATACACACAAATAT
1 -GTATCGATACACATTAA-AT
1262546 GTATCGATACA
1 GTATCGATACA
1262557 GGACATTGGC
Statistics
Matches: 41, Mismatches: 8, Indels: 4
0.77 0.15 0.08
Matches are distributed among these distances:
19 4 0.10
20 35 0.85
21 2 0.05
ACGTcount: A:0.41, C:0.17, G:0.13, T:0.30
Consensus pattern (19 bp):
GTATCGATACACATTAAAT
Found at i:1262609 original size:53 final size:53
Alignment explanation
Indices: 1262526--1262662 Score: 247
Period size: 53 Copynumber: 2.6 Consensus size: 53
1262516 AAATTGCATA
1262526 GTATCGATACACACAAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
1 GTATCGATACACAC-AATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
*
1262580 GTATCGATACACACAATATGTATCGATACAGGTCATTGGCAGTAGCCAAATTT
1 GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
*
1262633 GTATCGATACACAAAATATGTATCGATACA
1 GTATCGATACACACAATATGTATCGATACA
1262663 TTGGAAGTAG
Statistics
Matches: 81, Mismatches: 2, Indels: 1
0.96 0.02 0.01
Matches are distributed among these distances:
53 67 0.83
54 14 0.17
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (53 bp):
GTATCGATACACACAATATGTATCGATACAGGACATTGGCAGTAGCCAAATTT
Found at i:1262705 original size:10 final size:10
Alignment explanation
Indices: 1262686--1262716 Score: 53
Period size: 10 Copynumber: 3.1 Consensus size: 10
1262676 AATCTCATTT
1262686 TCACTGTTCA
1 TCACTGTTCA
*
1262696 TCACTATTCA
1 TCACTGTTCA
1262706 TCACTGTTCA
1 TCACTGTTCA
1262716 T
1 T
1262717 GTATCGATAC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
10 19 1.00
ACGTcount: A:0.23, C:0.29, G:0.06, T:0.42
Consensus pattern (10 bp):
TCACTGTTCA
Found at i:1262738 original size:21 final size:21
Alignment explanation
Indices: 1262704--1262763 Score: 111
Period size: 21 Copynumber: 2.8 Consensus size: 21
1262694 CATCACTATT
1262704 CATCACTGTTCATGTATCGATA
1 CATCACT-TTCATGTATCGATA
1262726 CATCACTTTCATGTATCGATA
1 CATCACTTTCATGTATCGATA
1262747 CATCACTTTCATGTATC
1 CATCACTTTCATGTATC
1262764 ACTGTTCACA
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
21 31 0.82
22 7 0.18
ACGTcount: A:0.27, C:0.25, G:0.10, T:0.38
Consensus pattern (21 bp):
CATCACTTTCATGTATCGATA
Found at i:1262785 original size:23 final size:22
Alignment explanation
Indices: 1262750--1262794 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 22
1262740 ATCGATACAT
* *
1262750 CACTTTCATGTATCACTGTTCA
1 CACTTTCACGTATCACTATTCA
1262772 CACTGTTCACGTATCACTATTCA
1 CACT-TTCACGTATCACTATTCA
1262795 TGTATCGTTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
22 4 0.20
23 16 0.80
ACGTcount: A:0.24, C:0.29, G:0.09, T:0.38
Consensus pattern (22 bp):
CACTTTCACGTATCACTATTCA
Found at i:1262866 original size:13 final size:13
Alignment explanation
Indices: 1262848--1262873 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1262838 ACATATTTGT
1262848 GTGTATCGATACA
1 GTGTATCGATACA
1262861 GTGTATCGATACA
1 GTGTATCGATACA
1262874 TCATAAATAG
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:0.31, C:0.15, G:0.23, T:0.31
Consensus pattern (13 bp):
GTGTATCGATACA
Found at i:1264110 original size:167 final size:163
Alignment explanation
Indices: 1263926--1264601 Score: 560
Period size: 167 Copynumber: 4.0 Consensus size: 163
1263916 AATTTCTTTC
* * * * *
1263926 GAAATTCCTCATGTTTTCAATTTACAAGGTTTTCTTTTTTGAAAATTTTTTCGGGAGGATTTTTC
1 GAAATTCTTCTTGTTTTCAA-TTACGAGGTTTTCTTCTTTGAAAATTTTTTCAGGAGGATTTTTC
* * *
1263991 ATAGTTTTTAATTTTCAAAATTCACAAAATATTATCATTTAGTTTATATTAAATTAGTTCTCAAA
65 TTGGTTTTTAATTTTCAAAATT-AC-AAATATCATCATTTA-TTTATATTAAATTAGTTCTCAAA
*
1264056 AATTCATTCATTTTCATAAAATTTTAAATTTTTCCTT
127 AATTAATTCATTTTCATAAAATTTTAAATTTTTCCTT
* * * **
1264093 AAAATTCTTCTTGTTTTCAAATTACGGGGTTTTCTTCTCT-ATAAATTTTTTTTGGAGGATTTTT
1 GAAATTCTTCTTGTTTTC-AATTACGAGGTTTTCTTCTTTGA-AAATTTTTTCAGGAGGATTTTT
* * * *
1264157 CTTGGTTTTTAATTTTTAAATGTTATCAAATATCATCATTTAATTCATATTAAATCAGTTC-CAA
64 CTTGGTTTTTAATTTTCAAA-ATTA-CAAATATCATCATTT-ATTTATATTAAATTAGTTCTC-A
* *
1264221 AAAATTTATTCATTTTCAT-AAATTTTGAAATTTTTTTCTT
125 AAAATTAATTCATTTTCATAAAATTTT-AAA-TTTTTCCTT
* * * * * * * *
1264261 GAAATTCTTATTTTTTTTAAATACGATGTTTTCTACTTCGTAAATTTTTTCAAGG-GGATTTTTC
1 GAAATTCTTCTTGTTTTCAATTACGAGGTTTTCTTCTTTGAAAATTTTTTC-AGGAGGATTTTTC
* * * * * * *
1264325 TTGGTTTTTAATTTTCAAAAATTATTAAATATCATTATTTATTTCATATTAATTTATTTTTTAGA
65 TTGGTTTTTAATTTTC-AAAATTA-CAAATATCATCATTTATTT-ATATTAAATTAGTTCTCAAA
**
1264390 AATTAATTCATTTTCATAAGTTTTTAAATTTTTCCTT
127 AATTAATTCATTTTCATAAAATTTTAAATTTTTCCTT
* * * ** * * *
1264427 GAAATTTCCCTT-TT-TTTTTAAATATGTTGTTTT-TTACTTGGTAAATTTTTT-AGAGGGGATT
1 GAAA-TT--CTTCTTGTTTTCAATTACGAGGTTTTCTT-CTTTGAAAATTTTTTCAG-GAGGATT
* * * *
1264488 TTTCTTGGTTTTTAATTTTTAAAATTCATTAAATATCATTATTTATTTCATATTAAATCATGTT-
61 TTTCTTGGTTTTTAATTTTCAAAATT-A-CAAATATCATCATTTATTT-ATATTAAATTA-GTTC
* * * ** * *
1264552 TTAGAAATTAATTCATTTTCATGAGTTTTTGAATTTTTTCTT
122 TCAAAAATTAATTCATTTTCATAAAATTTTAAATTTTTCCTT
1264594 GAAATTCT
1 GAAATTCT
1264602 ATTTTTTCAA
Statistics
Matches: 430, Mismatches: 57, Indels: 47
0.81 0.11 0.09
Matches are distributed among these distances:
164 2 0.00
165 2 0.00
166 34 0.08
167 347 0.81
168 42 0.10
169 3 0.01
ACGTcount: A:0.29, C:0.09, G:0.08, T:0.53
Consensus pattern (163 bp):
GAAATTCTTCTTGTTTTCAATTACGAGGTTTTCTTCTTTGAAAATTTTTTCAGGAGGATTTTTCT
TGGTTTTTAATTTTCAAAATTACAAATATCATCATTTATTTATATTAAATTAGTTCTCAAAAATT
AATTCATTTTCATAAAATTTTAAATTTTTCCTT
Done.