Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: CP032245.1 Gossypioides kirkii chromosome KI_2_4
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: 41238926
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Warning! 6100 characters in sequence are not A, C, G, or T
File 37 of 132
Found at i:9919335 original size:23 final size:23
Alignment explanation
Indices: 9919309--9919354 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
9919299 AAGGGAGAAA
9919309 ATAAAAAAATA-ACAAAAACAAAG
1 ATAAAAAAATATACAAAAA-AAAG
*
9919332 ATAAAAAGATATACAAAAAAAAG
1 ATAAAAAAATATACAAAAAAAAG
9919355 TTACGTGACG
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 14 0.67
24 7 0.33
ACGTcount: A:0.76, C:0.07, G:0.07, T:0.11
Consensus pattern (23 bp):
ATAAAAAAATATACAAAAAAAAG
Found at i:9919338 original size:29 final size:28
Alignment explanation
Indices: 9919274--9919338 Score: 69
Period size: 29 Copynumber: 2.2 Consensus size: 28
9919264 TTAACCCAAA
*
9919274 AGAAAAATAAGAAAAAAAGAAAAAAAAG
1 AGAAAAATAAGAAAAAAACAAAAAAAAG
*
9919302 GGAGAAAATAA-AAAAATAACAAAAACAAAG
1 AGA-AAAATAAGAAAAA-AACAAAAA-AAAG
*
9919332 ATAAAAA
1 AGAAAAA
9919339 GATATACAAA
Statistics
Matches: 30, Mismatches: 4, Indels: 5
0.77 0.10 0.13
Matches are distributed among these distances:
28 7 0.23
29 18 0.60
30 5 0.17
ACGTcount: A:0.78, C:0.03, G:0.12, T:0.06
Consensus pattern (28 bp):
AGAAAAATAAGAAAAAAACAAAAAAAAG
Found at i:9924387 original size:14 final size:14
Alignment explanation
Indices: 9924334--9924388 Score: 55
Period size: 13 Copynumber: 4.1 Consensus size: 14
9924324 AGCTTTTGAG
*
9924334 AAGTGCTTTTGAAA
1 AAGTGATTTTGAAA
*
9924348 TA-TG-TTTTGAAA
1 AAGTGATTTTGAAA
9924360 AAGTGATTTT-AAA
1 AAGTGATTTTGAAA
9924373 AAGT-ACTTTTGAAA
1 AAGTGA-TTTTGAAA
9924387 AA
1 AA
9924389 CTTTTAAAAA
Statistics
Matches: 35, Mismatches: 2, Indels: 8
0.78 0.04 0.18
Matches are distributed among these distances:
12 10 0.29
13 15 0.43
14 10 0.29
ACGTcount: A:0.42, C:0.04, G:0.16, T:0.38
Consensus pattern (14 bp):
AAGTGATTTTGAAA
Found at i:9925923 original size:17 final size:18
Alignment explanation
Indices: 9925891--9925925 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
9925881 ATAACTTTTA
9925891 AAAGTAAAAACAAAAAAT
1 AAAGTAAAAACAAAAAAT
*
9925909 AAAGTAAAACCAAAAAA
1 AAAGTAAAAACAAAAAA
9925926 GAGAGTGAGC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.77, C:0.09, G:0.06, T:0.09
Consensus pattern (18 bp):
AAAGTAAAAACAAAAAAT
Found at i:9926510 original size:20 final size:20
Alignment explanation
Indices: 9926485--9926535 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
9926475 ATTTTAAAAT
*
9926485 CAAGTCAAAATAATTTTAAC
1 CAAGTCAAAATAATTTCAAC
*
9926505 CAAGTCAAAATGATTTCAAC
1 CAAGTCAAAATAATTTCAAC
*
9926525 AAAGTCAAAAT
1 CAAGTCAAAAT
9926536 CATATAACAC
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.51, C:0.16, G:0.08, T:0.25
Consensus pattern (20 bp):
CAAGTCAAAATAATTTCAAC
Found at i:9934434 original size:12 final size:12
Alignment explanation
Indices: 9934417--9934443 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
9934407 TAAAGGAAAG
9934417 AAAAAATATATA
1 AAAAAATATATA
9934429 AAAAAATATATA
1 AAAAAATATATA
9934441 AAA
1 AAA
9934444 TAACAAAAGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (12 bp):
AAAAAATATATA
Found at i:9936180 original size:158 final size:155
Alignment explanation
Indices: 9935888--9936188 Score: 399
Period size: 158 Copynumber: 1.9 Consensus size: 155
9935878 TTACAGTTTC
* * *
9935888 GGGTGCTGGTCTTGGATGTTCTATCAATGGCAGTCCTGCATATGTTGCAAATTCTCCACAGCTCA
1 GGGTGCTGGTCTTAGATGTCCTATCAATGGCAGTCCTGCATATATTGCAAATTCTCCACAGCTCA
* * * *
9935953 TGTGAGCAGCATCGTGTAGCCTAACATCTAGACCCACAGCTCGTGTGAGCAGACCTATTTCACAG
66 TGTGAGCAGCATCGTGTAACCCAACATCTAGACCCACAACTCGTGTGAGCAGACCTATTTCACAA
9936018 CTCGTGTGAGCATTACAGATTATAT
131 CTCGTGTGAGCATTACAGATTATAT
* * *
9936043 GGGTGCTGGTCTTAGATGTCCTATCGATGGCTGAGGT-CTAGCATTTATTGCGAATTCTCCACAG
1 GGGTGCTGGTCTTAGATGTCCTATCAATGGC--A-GTCCT-GCATATATTGCAAATTCTCCACAG
* * * * *
9936107 CTCGTGTGAGTAGCATCGTGTAACCCCACATCTCGACCCACAACTCGTGTGAGCAG-GCTCATTT
62 CTCATGTGAGCAGCATCGTGTAACCCAACATCTAGACCCACAACTCGTGTGAGCAGACCT-ATTT
*
9936171 CATAACTCGTGTGAGCAT
126 CACAACTCGTGTGAGCAT
9936189 ATATGGATAC
Statistics
Matches: 125, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
155 28 0.22
157 5 0.04
158 92 0.74
ACGTcount: A:0.23, C:0.25, G:0.24, T:0.29
Consensus pattern (155 bp):
GGGTGCTGGTCTTAGATGTCCTATCAATGGCAGTCCTGCATATATTGCAAATTCTCCACAGCTCA
TGTGAGCAGCATCGTGTAACCCAACATCTAGACCCACAACTCGTGTGAGCAGACCTATTTCACAA
CTCGTGTGAGCATTACAGATTATAT
Found at i:9939981 original size:16 final size:14
Alignment explanation
Indices: 9939945--9939984 Score: 62
Period size: 15 Copynumber: 2.7 Consensus size: 14
9939935 CAGTAAATGA
9939945 TTTAAAATTAAAAT
1 TTTAAAATTAAAAT
9939959 TTTAAAATATAAAAT
1 TTTAAAAT-TAAAAT
9939974 TATTAAAATTA
1 T-TTAAAATTA
9939985 TTATCTTATT
Statistics
Matches: 24, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
14 8 0.33
15 9 0.38
16 7 0.29
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (14 bp):
TTTAAAATTAAAAT
Found at i:9939982 original size:9 final size:9
Alignment explanation
Indices: 9939951--9939987 Score: 53
Period size: 9 Copynumber: 4.4 Consensus size: 9
9939941 ATGATTTAAA
9939951 ATTAAAATT
1 ATTAAAATT
9939960 -TTAAAA-T
1 ATTAAAATT
9939967 A-TAAAATT
1 ATTAAAATT
9939975 ATTAAAATT
1 ATTAAAATT
9939984 ATTA
1 ATTA
9939988 TCTTATTTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
7 6 0.24
8 8 0.32
9 11 0.44
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (9 bp):
ATTAAAATT
Found at i:9941012 original size:20 final size:19
Alignment explanation
Indices: 9940987--9941075 Score: 72
Period size: 20 Copynumber: 4.4 Consensus size: 19
9940977 TTAATAATTT
9940987 TATATTTTCTTAAAAATTAA
1 TATATTTT-TTAAAAATTAA
* *
9941007 TATATTAATTTTAATAATTTTA
1 TATATT--TTTTAA-AAATTAA
*
9941029 TATATTTTTTAAAAAATAA
1 TATATTTTTTAAAAATTAA
* *
9941048 TATATTAATTTTAATAATT-T
1 TATATT--TTTTAAAAATTAA
9941068 TATATTTT
1 TATATTTT
9941076 AAAATTTTAA
Statistics
Matches: 56, Mismatches: 8, Indels: 12
0.74 0.11 0.16
Matches are distributed among these distances:
18 2 0.04
19 10 0.18
20 18 0.32
21 13 0.23
22 13 0.23
ACGTcount: A:0.43, C:0.01, G:0.00, T:0.56
Consensus pattern (19 bp):
TATATTTTTTAAAAATTAA
Found at i:9941053 original size:41 final size:40
Alignment explanation
Indices: 9940972--9941075 Score: 181
Period size: 41 Copynumber: 2.6 Consensus size: 40
9940962 CATTATTTAA
*
9940972 TAATTTTAATAATTTTATATTTTCTTAAAAATTAATATAT
1 TAATTTTAATAATTTTATATTTTCTTAAAAAATAATATAT
*
9941012 TAATTTTAATAATTTTATATATTTTTTAAAAAATAATATAT
1 TAATTTTAATAATTTTATAT-TTTCTTAAAAAATAATATAT
9941053 TAATTTTAATAATTTTATATTTT
1 TAATTTTAATAATTTTATATTTT
9941076 AAAATTTTAA
Statistics
Matches: 61, Mismatches: 2, Indels: 2
0.94 0.03 0.03
Matches are distributed among these distances:
40 23 0.38
41 38 0.62
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (40 bp):
TAATTTTAATAATTTTATATTTTCTTAAAAAATAATATAT
Found at i:9941076 original size:16 final size:15
Alignment explanation
Indices: 9941052--9941102 Score: 68
Period size: 15 Copynumber: 3.3 Consensus size: 15
9941042 AAATAATATA
9941052 TTAATTTTAATAATT
1 TTAATTTTAATAATT
9941067 TTATATTTTAA-AATT
1 TTA-ATTTTAATAATT
9941082 TTAATTTTAAATTAATT
1 TTAATTTT-AA-TAATT
9941099 TTAA
1 TTAA
9941103 ATCATTTACT
Statistics
Matches: 32, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
14 5 0.16
15 12 0.38
16 7 0.22
17 8 0.25
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (15 bp):
TTAATTTTAATAATT
Found at i:9942827 original size:22 final size:23
Alignment explanation
Indices: 9942782--9942827 Score: 58
Period size: 22 Copynumber: 2.0 Consensus size: 23
9942772 TCACATTCTC
* *
9942782 AATTCTCTCTCAAATCTCTTTTA
1 AATTCTCTCTCAAATCCCTCTTA
*
9942805 AATT-TCTCTCAATTCCCTCTTA
1 AATTCTCTCTCAAATCCCTCTTA
9942827 A
1 A
9942828 CTCACACTCA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 16 0.80
23 4 0.20
ACGTcount: A:0.26, C:0.28, G:0.00, T:0.46
Consensus pattern (23 bp):
AATTCTCTCTCAAATCCCTCTTA
Found at i:9947074 original size:25 final size:23
Alignment explanation
Indices: 9947019--9947074 Score: 58
Period size: 25 Copynumber: 2.3 Consensus size: 23
9947009 AACATAAATT
*
9947019 TAATTATTTGATTTTATAAAAAA
1 TAATTATTTGATTTCATAAAAAA
*
9947042 TAGTATTATTTGAATTTCATAATTAAA
1 TA--ATTATTTG-ATTTCATAA-AAAA
9947069 TAATTA
1 TAATTA
9947075 AAATTATAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 6
0.77 0.06 0.17
Matches are distributed among these distances:
23 2 0.07
25 12 0.44
26 8 0.30
27 5 0.19
ACGTcount: A:0.45, C:0.02, G:0.05, T:0.48
Consensus pattern (23 bp):
TAATTATTTGATTTCATAAAAAA
Found at i:9950356 original size:20 final size:22
Alignment explanation
Indices: 9950331--9950379 Score: 59
Period size: 20 Copynumber: 2.3 Consensus size: 22
9950321 ACATGTTAGT
*
9950331 ATTTAATTAAT-TTTTTTAA-A
1 ATTTAATAAATATTTTTTAATA
9950351 ATTTAA-AAATATTTTTTAATA
1 ATTTAATAAATATTTTTTAATA
9950372 ACTTTAAT
1 A-TTTAAT
9950380 GATTTTTAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 5
0.80 0.03 0.17
Matches are distributed among these distances:
19 3 0.12
20 14 0.58
21 2 0.08
22 5 0.21
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (22 bp):
ATTTAATAAATATTTTTTAATA
Found at i:9955853 original size:21 final size:21
Alignment explanation
Indices: 9955828--9955867 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
9955818 ATAAATGAGT
9955828 TTAATCAAGATTAAAAATGGG
1 TTAATCAAGATTAAAAATGGG
* * *
9955849 TTAATTAAGCTTAATAATG
1 TTAATCAAGATTAAAAATG
9955868 AAAGTCTAAA
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.45, C:0.05, G:0.15, T:0.35
Consensus pattern (21 bp):
TTAATCAAGATTAAAAATGGG
Found at i:9958553 original size:21 final size:24
Alignment explanation
Indices: 9958503--9958559 Score: 75
Period size: 21 Copynumber: 2.5 Consensus size: 24
9958493 TAAGCATGCA
9958503 AACTACCGATACTTCTATACATAC
1 AACTACCGATACTTCTATACATAC
**
9958527 AACTACCGATAC-TC-ATA-ATTT
1 AACTACCGATACTTCTATACATAC
9958548 AACTACCGATAC
1 AACTACCGATAC
9958560 AACTCAAGTC
Statistics
Matches: 31, Mismatches: 2, Indels: 3
0.86 0.06 0.08
Matches are distributed among these distances:
21 14 0.45
22 3 0.10
23 2 0.06
24 12 0.39
ACGTcount: A:0.39, C:0.28, G:0.05, T:0.28
Consensus pattern (24 bp):
AACTACCGATACTTCTATACATAC
Found at i:9959259 original size:51 final size:51
Alignment explanation
Indices: 9959141--9959429 Score: 384
Period size: 51 Copynumber: 5.6 Consensus size: 51
9959131 TTTCATTTAA
* ** * *
9959141 TACTCACGATGAC-GTATAGTCATCGGACCCCTTGTTCCGTATAGGAATTCATA
1 TACTCACGATGACACT-TAGTCATCGGA-CCCTTAATCCGTAAAGG-ATTCATT
* * * * *
9959194 TACTCACGATGACACTGAGTCATCGGACCCTTAATTCATCATGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCCTTAATCCGTAAAGGATTCATT
*
9959245 TACTCACGATGACACTTAGTCATCGGA-CCTGTAATCCGTAAAGAATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCCT-TAATCCGTAAAGGATTCATT
* *
9959296 TACTCACGATGACACTTAGTCATCGGACCTTTAATCTGTAAAGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCCTTAATCCGTAAAGGATTCATT
* * *
9959347 TACTCACGATGACTCTTAGTCATTGGACCTTTAATCCGTAAAGGATTCATT
1 TACTCACGATGACACTTAGTCATCGGACCCTTAATCCGTAAAGGATTCATT
9959398 TACTCACGATGACACTTAGTCATCGGACCCTT
1 TACTCACGATGACACTTAGTCATCGGACCCTT
9959430 TAGTTTATAG
Statistics
Matches: 208, Mismatches: 25, Indels: 8
0.86 0.10 0.03
Matches are distributed among these distances:
50 3 0.01
51 169 0.81
52 12 0.06
53 23 0.11
54 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.16, T:0.31
Consensus pattern (51 bp):
TACTCACGATGACACTTAGTCATCGGACCCTTAATCCGTAAAGGATTCATT
Found at i:9960337 original size:22 final size:22
Alignment explanation
Indices: 9960289--9960337 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
9960279 TTCATCATTA
* *
9960289 AACTTAATTAATCATTTTCTTT
1 AACTTAATTAATCACTATCTTT
9960311 AACTTAATTAATACACTAT-TTT
1 AACTTAATTAAT-CACTATCTTT
*
9960333 CACTT
1 AACTT
9960338 TAATATCATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 19 0.83
23 4 0.17
ACGTcount: A:0.35, C:0.16, G:0.00, T:0.49
Consensus pattern (22 bp):
AACTTAATTAATCACTATCTTT
Found at i:9967393 original size:13 final size:12
Alignment explanation
Indices: 9967377--9967415 Score: 53
Period size: 13 Copynumber: 3.2 Consensus size: 12
9967367 TTTTTCTGTC
9967377 TTTTCTTTCGTTT
1 TTTTCTTTC-TTT
9967390 TTTTC-TTCTTT
1 TTTTCTTTCTTT
9967401 ATTTTCTTTCTTT
1 -TTTTCTTTCTTT
9967414 TT
1 TT
9967416 CCCCTTTCTT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
11 3 0.12
12 10 0.42
13 11 0.46
ACGTcount: A:0.03, C:0.15, G:0.03, T:0.79
Consensus pattern (12 bp):
TTTTCTTTCTTT
Found at i:9967406 original size:21 final size:23
Alignment explanation
Indices: 9967367--9967416 Score: 61
Period size: 22 Copynumber: 2.3 Consensus size: 23
9967357 AACACCTAGA
9967367 TTTTTCTGTCTTTTCTTTCGTT-
1 TTTTTCTGTCTTTTCTTTCGTTC
*
9967389 TTTTTCT-TCTTTAT-TTTCTTTC
1 TTTTTCTGTCTTT-TCTTTCGTTC
9967411 TTTTTC
1 TTTTTC
9967417 CCCTTTCTTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
21 11 0.44
22 14 0.56
ACGTcount: A:0.02, C:0.18, G:0.04, T:0.76
Consensus pattern (23 bp):
TTTTTCTGTCTTTTCTTTCGTTC
Found at i:9967940 original size:2 final size:2
Alignment explanation
Indices: 9967933--9967960 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
9967923 TTTAGATGTT
9967933 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG
9967961 GTGGGTGGGG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
AG
Found at i:9968910 original size:31 final size:30
Alignment explanation
Indices: 9968873--9968994 Score: 106
Period size: 30 Copynumber: 4.1 Consensus size: 30
9968863 ATTAAAAAAA
9968873 TTAGGTACCAAATTAGGAAAAATAGTCAAGT
1 TTAGGTACCAAATTAGGAAAAAT-GTCAAGT
* *** ***
9968904 TCAGGTACCAAATT-GG-ATCCTAAAAAGT
1 TTAGGTACCAAATTAGGAAAAATGTCAAGT
* * *
9968932 TTAAGTACCAACTTTA-AAAAAATGTCAAGT
1 TTAGGTACCAA-ATTAGGAAAAATGTCAAGT
9968962 TTAGGTACCAAATTAGGAAAAAGTGTCAAGT
1 TTAGGTACCAAATTAGGAAAAA-TGTCAAGT
9968993 TT
1 TT
9968995 GAGTACAAAA
Statistics
Matches: 66, Mismatches: 20, Indels: 10
0.69 0.21 0.10
Matches are distributed among these distances:
28 13 0.20
29 7 0.11
30 23 0.35
31 23 0.35
ACGTcount: A:0.43, C:0.12, G:0.17, T:0.28
Consensus pattern (30 bp):
TTAGGTACCAAATTAGGAAAAATGTCAAGT
Found at i:9968964 original size:30 final size:30
Alignment explanation
Indices: 9968928--9969049 Score: 103
Period size: 31 Copynumber: 4.2 Consensus size: 30
9968918 GGATCCTAAA
*
9968928 AAGTTTAAGTACCAACTTTA-AAAAAATGTC
1 AAGTTTAAGTACCAA-ATTAGAAAAAATGTC
* *
9968958 AAGTTTAGGTACCAAATTAGGAAAAAGTGTC
1 AAGTTTAAGTACCAAATTA-GAAAAAATGTC
* * * *
9968989 AAGTTTGAGTACAAAATTGGACAAAA----
1 AAGTTTAAGTACCAAATTAGAAAAAATGTC
*
9969015 AA-TTTAAGTACCAAATTAAAAAAAAATGTC
1 AAGTTTAAGTACCAAATT-AGAAAAAATGTC
9969045 AAGTT
1 AAGTT
9969050 CAAAAACCAA
Statistics
Matches: 70, Mismatches: 14, Indels: 15
0.71 0.14 0.15
Matches are distributed among these distances:
25 13 0.19
26 7 0.10
29 3 0.04
30 21 0.30
31 26 0.37
ACGTcount: A:0.48, C:0.10, G:0.15, T:0.27
Consensus pattern (30 bp):
AAGTTTAAGTACCAAATTAGAAAAAATGTC
Found at i:9968982 original size:89 final size:87
Alignment explanation
Indices: 9968873--9969049 Score: 243
Period size: 89 Copynumber: 2.0 Consensus size: 87
9968863 ATTAAAAAAA
* *
9968873 TTAGGTACCAAATTAGGAAAAA-TAGTCAAGTTCAG-GTACCAAATTGGATCCTAAAAAGTTTAA
1 TTAGGTACCAAATTAGGAAAAAGT-GTCAAGTT-AGAGTACAAAATTGGA--C-AAAAAATTTAA
* *
9968936 GTACCAACTT-TAAAAAAATGTCAAGT
61 GTACCAAATTAAAAAAAAATGTCAAGT
*
9968962 TTAGGTACCAAATTAGGAAAAAGTGTCAAGTTTGAGTACAAAATTGGACAAAAAATTTAAGTACC
1 TTAGGTACCAAATTAGGAAAAAGTGTCAAGTTAGAGTACAAAATTGGACAAAAAATTTAAGTACC
9969027 AAATTAAAAAAAAATGTCAAGT
66 AAATTAAAAAAAAATGTCAAGT
9969049 T
1 T
9969050 CAAAAACCAA
Statistics
Matches: 80, Mismatches: 5, Indels: 8
0.86 0.05 0.09
Matches are distributed among these distances:
86 19 0.24
87 17 0.21
88 1 0.01
89 42 0.52
90 1 0.01
ACGTcount: A:0.46, C:0.11, G:0.16, T:0.27
Consensus pattern (87 bp):
TTAGGTACCAAATTAGGAAAAAGTGTCAAGTTAGAGTACAAAATTGGACAAAAAATTTAAGTACC
AAATTAAAAAAAAATGTCAAGT
Found at i:9972313 original size:196 final size:197
Alignment explanation
Indices: 9971968--9972331 Score: 493
Period size: 196 Copynumber: 1.9 Consensus size: 197
9971958 ATTTAGGCAT
* * * *
9971968 TTTAAAATTTTTAAAATTTTAAATTAGTAAAACTGAAATTACACTTTGACTCTCCTAAAATTAAT
1 TTTAAAATTTTTAAAATTTTAAATTAGTAAAACTAAAATTACACTTTGACTCCCCTAAAAATAAG
** * *
9972033 AAAACTTTGATTTAATTTTTTTAAAAATTATAAAAAATATAGATTATTCAAATGGTAAAATTGCA
66 AAAACTTTGATTTAATTCCTTTAAAAATTATAAAAAATATAGACTATTCAAACGGTAAAATTGCA
* *
9972098 TTTTTACTATTAGAAATTACAATTTAATTTC-GTCCCCCTAAAATAAAAATTTTTCCATTTAGCC
131 TTTTTACAATTAAAAATTACAATTTAATTTCGGTCCCCCTAAAATAAAAATTTTTCCATTTAGCC
9972162 CC
196 CC
* ** * *
9972164 TTTAAAATTTTTTAAATTTTAAATTAGTAAAGGTAAAATTGCACTTTGGCTCCCCTAAAAATAAG
1 TTTAAAATTTTTAAAATTTTAAATTAGTAAAACTAAAATTACACTTTGACTCCCCTAAAAATAAG
* * * * *
9972229 AAAATTTTGATTTGA-TCCTTTAAAAATTAT-AAAAATTTA-AGCTATTCAAACGGTGAAATTGT
66 AAAACTTTGATTTAATTCCTTTAAAAATTATAAAAAATATAGA-CTATTCAAACGGTAAAATTGC
9972291 ATTTTTACAATCATAAAAATTACAATTTAATTTCGGTCCCC
130 ATTTTTACAAT--TAAAAATTACAATTTAATTTCGGTCCCC
9972332 TTTAAAAAAA
Statistics
Matches: 144, Mismatches: 20, Indels: 7
0.84 0.12 0.04
Matches are distributed among these distances:
193 1 0.01
194 35 0.24
195 13 0.09
196 89 0.62
197 6 0.04
ACGTcount: A:0.41, C:0.12, G:0.07, T:0.40
Consensus pattern (197 bp):
TTTAAAATTTTTAAAATTTTAAATTAGTAAAACTAAAATTACACTTTGACTCCCCTAAAAATAAG
AAAACTTTGATTTAATTCCTTTAAAAATTATAAAAAATATAGACTATTCAAACGGTAAAATTGCA
TTTTTACAATTAAAAATTACAATTTAATTTCGGTCCCCCTAAAATAAAAATTTTTCCATTTAGCC
CC
Found at i:9978401 original size:18 final size:19
Alignment explanation
Indices: 9978380--9978415 Score: 65
Period size: 18 Copynumber: 1.9 Consensus size: 19
9978370 CTTTTAATAG
9978380 TTTTAAGACTT-TAATTTA
1 TTTTAAGACTTGTAATTTA
9978398 TTTTAAGACTTGTAATTT
1 TTTTAAGACTTGTAATTT
9978416 TGGGGATAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 11 0.65
19 6 0.35
ACGTcount: A:0.31, C:0.06, G:0.08, T:0.56
Consensus pattern (19 bp):
TTTTAAGACTTGTAATTTA
Found at i:9983245 original size:24 final size:24
Alignment explanation
Indices: 9983213--9983285 Score: 85
Period size: 24 Copynumber: 3.0 Consensus size: 24
9983203 AGTTAAACTC
9983213 TATCTGGGCTCGAATGAGCTAATT
1 TATCTGGGCTCGAATGAGCTAATT
* **
9983237 TATCTGGGCTCGTAA-GAACTAACC
1 TATCTGGGCTCG-AATGAGCTAATT
* *
9983261 TATCTAGGCTCGTATGAGCTAATT
1 TATCTGGGCTCGAATGAGCTAATT
9983285 T
1 T
9983286 TGTTTGGGCT
Statistics
Matches: 39, Mismatches: 8, Indels: 4
0.76 0.16 0.08
Matches are distributed among these distances:
23 1 0.03
24 36 0.92
25 2 0.05
ACGTcount: A:0.26, C:0.19, G:0.22, T:0.33
Consensus pattern (24 bp):
TATCTGGGCTCGAATGAGCTAATT
Found at i:9985524 original size:28 final size:27
Alignment explanation
Indices: 9985449--9985529 Score: 85
Period size: 28 Copynumber: 2.9 Consensus size: 27
9985439 ATTTGTCATA
9985449 TTCGACCTAACAGATTAAATTA-G-TT
1 TTCGACCTAACAGATTAAATTAGGCTT
* * *
9985474 TTCGTACTTTAAGAGCTTGAAATTAGGCATT
1 TTCG-AC-CTAACAGATT-AAATTAGGC-TT
9985505 TTCGACCTAACAGATTAAATTAGGC
1 TTCGACCTAACAGATTAAATTAGGC
9985530 CCTTTGAGCG
Statistics
Matches: 44, Mismatches: 6, Indels: 9
0.75 0.10 0.15
Matches are distributed among these distances:
25 4 0.09
26 2 0.05
27 7 0.16
28 15 0.34
29 8 0.18
30 2 0.05
31 6 0.14
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (27 bp):
TTCGACCTAACAGATTAAATTAGGCTT
Found at i:9985632 original size:24 final size:24
Alignment explanation
Indices: 9985586--9985633 Score: 69
Period size: 25 Copynumber: 2.0 Consensus size: 24
9985576 CTTCTTGTAA
*
9985586 TTTAGGTTTAGTTGTTTTCTTTTC
1 TTTAGGTTTAGTTGTTGTCTTTTC
*
9985610 TTTAGGCTTTAGTTGTTGTTTTTT
1 TTTAGG-TTTAGTTGTTGTCTTTT
9985634 ACGAAAATAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
24 6 0.29
25 15 0.71
ACGTcount: A:0.08, C:0.06, G:0.19, T:0.67
Consensus pattern (24 bp):
TTTAGGTTTAGTTGTTGTCTTTTC
Found at i:10003160 original size:121 final size:116
Alignment explanation
Indices: 10002944--10003405 Score: 499
Period size: 121 Copynumber: 3.9 Consensus size: 116
10002934 ATTACATAAT
* * * * * * *
10002944 TCTTGGTCTCAGAGACACATCTCAAACAATGCTACCTTATCTCAAAATCATAAATTTCAAGTCTT
1 TCTTGGTCTCAGAGACAGA-C-CAAACATTGGTACCTTATGTCAAAAT-ATAAAATTCAAATATT
* * *
10003009 TACATTTTAATGTAACAATAAAAGGAATTTGTCATTGTACACAGACACATATATG
63 TACATTTTAAAGTAACAATAAATGGAATTTGTCATAGTACACAGACACA-ATATG
*
10003064 TCTTTGGTCTCAGAGACACAGACCAAACATTGGTTCCTTATGTCAAAATGATAAAATTCAAATAT
1 TC-TTGGTCTCAGAG--ACAGACCAAACATTGGTACCTTATGTCAAAAT-ATAAAATTCAAATAT
* * * *
10003129 TTACATTTTAAAGCAACAATAAATGGAATTTGCCATAGAACACAGA-AGCAAATCTG
62 TTACATTTTAAAGTAACAATAAATGGAATTTGTCATAGTACACAGACA-C-AATATG
* * *
10003185 TCTTGGTCTCAGAGACAGATCAAACCTTGGTACCTTATGTCAAAAATATGAAATTCAAATATTTA
1 TCTTGGTCTCAGAGACAGACCAAACATTGGTACCTTATGTC-AAAATATAAAATTCAAATATTTA
* * *
10003250 CATTTTAAAGTAACAATAAATGGAATTAGTCATAGTACACATACAC-ACATG
65 CATTTTAAAGTAACAATAAATGGAATTTGTCATAGTACACAGACACAATATG
* * *
10003301 TCTTGGTCTCAGAG--AGATCAAATATTGGCACC-T-T-TCAAAATA-AACAATTTCAAATATTT
1 TCTTGGTCTCAGAGACAGACCAAACATTGGTACCTTATGTCAAAATATAA-AA-TTCAAATATTT
* * * *
10003360 ACATCTTAAAGTGACAATAAATGGAATTTGTGATAGTACACGGACA
64 ACATTTTAAAGTAACAATAAATGGAATTTGTCATAGTACACAGACA
10003406 TGTGTGCATT
Statistics
Matches: 296, Mismatches: 37, Indels: 27
0.82 0.10 0.08
Matches are distributed among these distances:
109 1 0.00
110 8 0.03
111 53 0.18
112 1 0.00
113 1 0.00
114 15 0.05
116 17 0.06
118 80 0.27
119 6 0.02
120 15 0.05
121 93 0.31
122 2 0.01
123 4 0.01
ACGTcount: A:0.39, C:0.17, G:0.13, T:0.30
Consensus pattern (116 bp):
TCTTGGTCTCAGAGACAGACCAAACATTGGTACCTTATGTCAAAATATAAAATTCAAATATTTAC
ATTTTAAAGTAACAATAAATGGAATTTGTCATAGTACACAGACACAATATG
Found at i:10011556 original size:21 final size:21
Alignment explanation
Indices: 10011525--10011580 Score: 87
Period size: 21 Copynumber: 2.7 Consensus size: 21
10011515 AAATGTGCAG
*
10011525 ATTTCTACCGATACAAGTGAT
1 ATTTCTACCGATACAAGTGAC
10011546 AGTTT-TACCGATACAAGTGAC
1 A-TTTCTACCGATACAAGTGAC
10011567 ATTTCTACCGATAC
1 ATTTCTACCGATAC
10011581 TAAAAACTCC
Statistics
Matches: 32, Mismatches: 1, Indels: 4
0.86 0.03 0.11
Matches are distributed among these distances:
20 3 0.09
21 26 0.81
22 3 0.09
ACGTcount: A:0.32, C:0.21, G:0.14, T:0.32
Consensus pattern (21 bp):
ATTTCTACCGATACAAGTGAC
Found at i:10019652 original size:62 final size:62
Alignment explanation
Indices: 10019545--10019745 Score: 303
Period size: 62 Copynumber: 3.2 Consensus size: 62
10019535 TGGAAAATGA
* *
10019545 AAAGAGTCCGATGTCTTTTTGATATCATGAGTATTACATGAGAAATGAATCCTATTATGGATT
1 AAAG-GTCCGATGTCTTTGTGATATCGTGAGTATTACATGAGAAATGAATCCTATTATGGATT
* * * * *
10019608 AAAGGTCCGATATCTTTGTGATATTGTGAGAATTACATGGGAAATGAATCCTATTACGGATT
1 AAAGGTCCGATGTCTTTGTGATATCGTGAGTATTACATGAGAAATGAATCCTATTATGGATT
*
10019670 AAAGGTCCGATGTCTTCGTGATATCGTGAGTATTACATGAGAAATGAATCCTATTATGGATT
1 AAAGGTCCGATGTCTTTGTGATATCGTGAGTATTACATGAGAAATGAATCCTATTATGGATT
* *
10019732 TAATGTCCGATGTC
1 AAAGGTCCGATGTC
10019746 GAAAATCTTG
Statistics
Matches: 123, Mismatches: 15, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
62 119 0.97
63 4 0.03
ACGTcount: A:0.31, C:0.12, G:0.21, T:0.35
Consensus pattern (62 bp):
AAAGGTCCGATGTCTTTGTGATATCGTGAGTATTACATGAGAAATGAATCCTATTATGGATT
Found at i:10020556 original size:21 final size:21
Alignment explanation
Indices: 10020532--10020582 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
10020522 GAGATAATAT
*
10020532 TACCGATACAAGT-GTGACTTC
1 TACCGATACAAGTCATG-CTTC
* *
10020553 TACCGAAACATGTCATGCTTC
1 TACCGATACAAGTCATGCTTC
10020574 TACCGATAC
1 TACCGATAC
10020583 TAAAAACTCT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 23 0.92
22 2 0.08
ACGTcount: A:0.29, C:0.27, G:0.16, T:0.27
Consensus pattern (21 bp):
TACCGATACAAGTCATGCTTC
Found at i:10025634 original size:9 final size:9
Alignment explanation
Indices: 10025600--10025628 Score: 58
Period size: 9 Copynumber: 3.2 Consensus size: 9
10025590 TATTATAAAA
10025600 ATTACTTAT
1 ATTACTTAT
10025609 ATTACTTAT
1 ATTACTTAT
10025618 ATTACTTAT
1 ATTACTTAT
10025627 AT
1 AT
10025629 GTCTTAAATA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 20 1.00
ACGTcount: A:0.34, C:0.10, G:0.00, T:0.55
Consensus pattern (9 bp):
ATTACTTAT
Found at i:10025801 original size:35 final size:36
Alignment explanation
Indices: 10025761--10025828 Score: 111
Period size: 36 Copynumber: 1.9 Consensus size: 36
10025751 AAAAATTATA
10025761 TTTAATACAATAAAA-AATTATTATATTTATGTGTT
1 TTTAATACAATAAAACAATTATTATATTTATGTGTT
* *
10025796 TTTAATATAATAAAACATTTATTATATTTATGT
1 TTTAATACAATAAAACAATTATTATATTTATGT
10025829 TAGGGGGTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
35 14 0.47
36 16 0.53
ACGTcount: A:0.43, C:0.03, G:0.04, T:0.50
Consensus pattern (36 bp):
TTTAATACAATAAAACAATTATTATATTTATGTGTT
Found at i:10026223 original size:27 final size:27
Alignment explanation
Indices: 10026161--10026215 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
10026151 AAAGTAAATC
*
10026161 TCAA-AAAAAAAAAACTTCACTGTGAA
1 TCAACAAAAAAAAAACTTCACCGTGAA
10026187 TCAACAAAAAAAAAACTTCACCGTGAA
1 TCAACAAAAAAAAAACTTCACCGTGAA
10026214 TC
1 TC
10026216 TATAAAAATC
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
26 4 0.15
27 23 0.85
ACGTcount: A:0.55, C:0.20, G:0.07, T:0.18
Consensus pattern (27 bp):
TCAACAAAAAAAAAACTTCACCGTGAA
Found at i:10040658 original size:40 final size:40
Alignment explanation
Indices: 10040607--10040766 Score: 203
Period size: 40 Copynumber: 4.0 Consensus size: 40
10040597 GATAGTATAT
* * *
10040607 ACCGGCACGAAGCCTACTAGGCACAAATCTCGATAAATAC
1 ACCGGCACGAAGCCTACTAGGCACTAAGCCCGATAAATAC
* * *
10040647 ACCGGCACGAAGCTTGCTGGGCACTAAGCCCGATAAATAC
1 ACCGGCACGAAGCCTACTAGGCACTAAGCCCGATAAATAC
* * * *
10040687 ACCGACACGAAGTCTACTTGGCACTAAGCTCGATAAATAC
1 ACCGGCACGAAGCCTACTAGGCACTAAGCCCGATAAATAC
* * *
10040727 ACCGGCATGAAGCTTGCTAGGCACTAAGCCCGATAAATAC
1 ACCGGCACGAAGCCTACTAGGCACTAAGCCCGATAAATAC
10040767 CGGGGGATTT
Statistics
Matches: 101, Mismatches: 19, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
40 101 1.00
ACGTcount: A:0.34, C:0.29, G:0.21, T:0.17
Consensus pattern (40 bp):
ACCGGCACGAAGCCTACTAGGCACTAAGCCCGATAAATAC
Found at i:10040710 original size:80 final size:80
Alignment explanation
Indices: 10040571--10040766 Score: 266
Period size: 80 Copynumber: 2.4 Consensus size: 80
10040561 ATAGCATCGA
* * * * * * * *
10040571 CACGAAACTTGCTAGGCTCAAAGCCTGATAGTATATACCGGCACGAAGCCTACTAGGCACAAATC
1 CACGAAGCTTGCTAGGCACTAAGCCCGATA-AATACACCGACACGAAGCCTACTAGGCACAAAGC
10040636 TCGATAAATACACCGG
65 TCGATAAATACACCGG
* * * *
10040652 CACGAAGCTTGCTGGGCACTAAGCCCGATAAATACACCGACACGAAGTCTACTTGGCACTAAGCT
1 CACGAAGCTTGCTAGGCACTAAGCCCGATAAATACACCGACACGAAGCCTACTAGGCACAAAGCT
10040717 CGATAAATACACCGG
66 CGATAAATACACCGG
*
10040732 CATGAAGCTTGCTAGGCACTAAGCCCGATAAATAC
1 CACGAAGCTTGCTAGGCACTAAGCCCGATAAATAC
10040767 CGGGGGATTT
Statistics
Matches: 101, Mismatches: 14, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
80 76 0.75
81 25 0.25
ACGTcount: A:0.34, C:0.28, G:0.20, T:0.18
Consensus pattern (80 bp):
CACGAAGCTTGCTAGGCACTAAGCCCGATAAATACACCGACACGAAGCCTACTAGGCACAAAGCT
CGATAAATACACCGG
Found at i:10047101 original size:13 final size:13
Alignment explanation
Indices: 10047085--10047128 Score: 52
Period size: 13 Copynumber: 3.4 Consensus size: 13
10047075 CTTGCGCTAC
10047085 CACCTCACAATAT
1 CACCTCACAATAT
*
10047098 CACCTCACACTAT
1 CACCTCACAATAT
* * *
10047111 CTCCTCGCAATAC
1 CACCTCACAATAT
10047124 CACCT
1 CACCT
10047129 AGCGATCTCA
Statistics
Matches: 25, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.30, C:0.45, G:0.02, T:0.23
Consensus pattern (13 bp):
CACCTCACAATAT
Found at i:10047125 original size:39 final size:39
Alignment explanation
Indices: 10047082--10047180 Score: 128
Period size: 39 Copynumber: 2.5 Consensus size: 39
10047072 CACCTTGCGC
* * * *
10047082 TACCACCTCACAATATCACCTCACACTATCTCCTCGCAA
1 TACCACCTCACGATCTCACCTCACACTACCACCTCGCAA
*
10047121 TACCACCT-AGCGATCTCACCTCACTCTACCACCTCGCAA
1 TACCACCTCA-CGATCTCACCTCACACTACCACCTCGCAA
*
10047160 CACCACCTCACGATCTCACCT
1 TACCACCTCACGATCTCACCT
10047181 TGCGATACCA
Statistics
Matches: 52, Mismatches: 6, Indels: 4
0.84 0.10 0.06
Matches are distributed among these distances:
38 1 0.02
39 50 0.96
40 1 0.02
ACGTcount: A:0.27, C:0.46, G:0.05, T:0.21
Consensus pattern (39 bp):
TACCACCTCACGATCTCACCTCACACTACCACCTCGCAA
Found at i:10047190 original size:39 final size:39
Alignment explanation
Indices: 10047113--10047191 Score: 97
Period size: 39 Copynumber: 2.0 Consensus size: 39
10047103 CACACTATCT
* **
10047113 CCTCGCAATACCACCTAGCGATCTCACCTCACTCTACCA
1 CCTCGCAACACCACCTAGCGATCTCACCTCACGATACCA
**
10047152 CCTCGCAACACCACCTCA-CGATCTCACCTTGCGATACCA
1 CCTCGCAACACCACCT-AGCGATCTCACCTCACGATACCA
10047191 C
1 C
10047192 TTAGTAGTAT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
39 33 0.97
40 1 0.03
ACGTcount: A:0.25, C:0.47, G:0.09, T:0.19
Consensus pattern (39 bp):
CCTCGCAACACCACCTAGCGATCTCACCTCACGATACCA
Found at i:10047840 original size:26 final size:26
Alignment explanation
Indices: 10047810--10047875 Score: 73
Period size: 26 Copynumber: 2.5 Consensus size: 26
10047800 CTTAAACCAA
* *
10047810 ACTTTTCAAAATTACTTTTTAAAAGC
1 ACTTTTCAAAATCACTTTTTAAAAAC
*
10047836 ACTTTTTC-ACATCACTTTTTAAAAAC
1 AC-TTTTCAAAATCACTTTTTAAAAAC
10047862 A-TATTTCAAAATCA
1 ACT-TTTCAAAATCA
10047876 ATACTAAACT
Statistics
Matches: 33, Mismatches: 4, Indels: 6
0.77 0.09 0.14
Matches are distributed among these distances:
24 1 0.03
25 4 0.12
26 23 0.70
27 5 0.15
ACGTcount: A:0.39, C:0.18, G:0.02, T:0.41
Consensus pattern (26 bp):
ACTTTTCAAAATCACTTTTTAAAAAC
Found at i:10053308 original size:21 final size:22
Alignment explanation
Indices: 10053265--10053323 Score: 75
Period size: 21 Copynumber: 2.7 Consensus size: 22
10053255 TCAAAGAAAT
*
10053265 ATATAAAATACATAAATTTTAAA
1 ATATATAATA-ATAAATTTTAAA
10053288 ATATATAATAATAAA-TTTAAA
1 ATATATAATAATAAATTTTAAA
* *
10053309 AAATATAAAAATAAA
1 ATATATAATAATAAA
10053324 AAAATATTGT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
21 19 0.58
22 5 0.15
23 9 0.27
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (22 bp):
ATATATAATAATAAATTTTAAA
Found at i:10054030 original size:29 final size:29
Alignment explanation
Indices: 10053968--10054024 Score: 82
Period size: 29 Copynumber: 2.0 Consensus size: 29
10053958 TTAAATCTAT
*
10053968 AAAGTTGAGAGATTAAATTATTGAAAATA
1 AAAGTTGAGAGATTAAATTATTAAAAATA
10053997 AAAGTTG-GAGGATTAAATT-TTAAAAATA
1 AAAGTTGAGA-GATTAAATTATTAAAAATA
10054025 CGAAGTGTAG
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
28 10 0.38
29 16 0.62
ACGTcount: A:0.51, C:0.00, G:0.18, T:0.32
Consensus pattern (29 bp):
AAAGTTGAGAGATTAAATTATTAAAAATA
Found at i:10055583 original size:58 final size:58
Alignment explanation
Indices: 10055521--10055635 Score: 140
Period size: 58 Copynumber: 2.0 Consensus size: 58
10055511 ATAGTAATTC
** * * *
10055521 TAATTATTAATAAATTTTATTCGATGGTGTAATTATGAAAAATTATAAAATAATTATT
1 TAATTATTAATAAATTTTATTCGATCATCTAATTATAAAAAATTAAAAAATAATTATT
* * * * *
10055579 TAATTGTTAGTAAATTTTTTTGGATCATCTAATTATAAAAAATTAAAAAATTATTAT
1 TAATTATTAATAAATTTTATTCGATCATCTAATTATAAAAAATTAAAAAATAATTAT
10055636 ATTACTATTC
Statistics
Matches: 47, Mismatches: 10, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
58 47 1.00
ACGTcount: A:0.44, C:0.03, G:0.08, T:0.45
Consensus pattern (58 bp):
TAATTATTAATAAATTTTATTCGATCATCTAATTATAAAAAATTAAAAAATAATTATT
Found at i:10062485 original size:16 final size:16
Alignment explanation
Indices: 10062453--10062482 Score: 53
Period size: 15 Copynumber: 1.9 Consensus size: 16
10062443 TCATATTTGG
10062453 AAAATATGTTTATTTA
1 AAAATATGTTTATTTA
10062469 AAAATAT-TTTATTT
1 AAAATATGTTTATTT
10062483 TAACATAACA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 7 0.50
16 7 0.50
ACGTcount: A:0.43, C:0.00, G:0.03, T:0.53
Consensus pattern (16 bp):
AAAATATGTTTATTTA
Found at i:10064603 original size:18 final size:18
Alignment explanation
Indices: 10064580--10064637 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 18
10064570 TTGTTGACGC
10064580 ATATGTCTCGACTTACCA
1 ATATGTCTCGACTTACCA
*
10064598 ATATGT-TTG--TTGACGC-
1 ATATGTCTCGACTT-AC-CA
10064614 ATATGTCTCGACTTACCA
1 ATATGTCTCGACTTACCA
10064632 ATATGT
1 ATATGT
10064638 TAGCAAGACA
Statistics
Matches: 32, Mismatches: 2, Indels: 12
0.70 0.04 0.26
Matches are distributed among these distances:
15 2 0.06
16 8 0.25
17 6 0.19
18 14 0.44
19 2 0.06
ACGTcount: A:0.26, C:0.21, G:0.16, T:0.38
Consensus pattern (18 bp):
ATATGTCTCGACTTACCA
Found at i:10064609 original size:34 final size:34
Alignment explanation
Indices: 10064566--10064638 Score: 139
Period size: 34 Copynumber: 2.2 Consensus size: 34
10064556 CTAATGGTAT
10064566 TATG-TTGTTGACGCATATGTCTCGACTTACCAA
1 TATGTTTGTTGACGCATATGTCTCGACTTACCAA
10064599 TATGTTTGTTGACGCATATGTCTCGACTTACCAA
1 TATGTTTGTTGACGCATATGTCTCGACTTACCAA
10064633 TATGTT
1 TATGTT
10064639 AGCAAGACAC
Statistics
Matches: 39, Mismatches: 0, Indels: 1
0.98 0.00 0.03
Matches are distributed among these distances:
33 4 0.10
34 35 0.90
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.40
Consensus pattern (34 bp):
TATGTTTGTTGACGCATATGTCTCGACTTACCAA
Found at i:10065425 original size:19 final size:20
Alignment explanation
Indices: 10065391--10065428 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
10065381 ATCTCCTTCC
10065391 CACATAAAGCCTATATCAGG
1 CACATAAAGCCTATATCAGG
*
10065411 CACAT-AAGTCTATATCAG
1 CACATAAAGCCTATATCAG
10065429 ACACTTCCTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.39, C:0.24, G:0.13, T:0.24
Consensus pattern (20 bp):
CACATAAAGCCTATATCAGG
Found at i:10065729 original size:13 final size:13
Alignment explanation
Indices: 10065711--10065757 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
10065701 TTTTGATTTC
10065711 ACAATTTAAAGCT
1 ACAATTTAAAGCT
10065724 ACAATTT-AAGCTTT
1 ACAATTTAAAGC--T
*
10065738 CACAATTTAAAGCC
1 -ACAATTTAAAGCT
10065752 ACAATT
1 ACAATT
10065758 GAGGGCACAA
Statistics
Matches: 29, Mismatches: 1, Indels: 8
0.76 0.03 0.21
Matches are distributed among these distances:
12 4 0.14
13 13 0.45
14 1 0.03
15 7 0.24
16 4 0.14
ACGTcount: A:0.43, C:0.19, G:0.06, T:0.32
Consensus pattern (13 bp):
ACAATTTAAAGCT
Found at i:10065744 original size:15 final size:15
Alignment explanation
Indices: 10065707--10065747 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
10065697 TTTTTTTTGA
10065707 TTTCACAATTTAAAGC
1 TTTCACAATTT-AAGC
10065723 --T-ACAATTTAAGC
1 TTTCACAATTTAAGC
10065735 TTTCACAATTTAA
1 TTTCACAATTTAA
10065748 AGCCACAATT
Statistics
Matches: 22, Mismatches: 0, Indels: 7
0.76 0.00 0.24
Matches are distributed among these distances:
12 4 0.18
13 7 0.32
14 2 0.09
15 9 0.41
ACGTcount: A:0.39, C:0.17, G:0.05, T:0.39
Consensus pattern (15 bp):
TTTCACAATTTAAGC
Found at i:10066307 original size:167 final size:167
Alignment explanation
Indices: 10066073--10066385 Score: 400
Period size: 167 Copynumber: 1.9 Consensus size: 167
10066063 TAATTAATAT
* * * * * *
10066073 AAAATCCAAATATAGAATCTAATCTGTTAATCGGCGGGAATAAATTCCGATATAGATTTAGTCAA
1 AAAATCCAAATATAGAATCAAATCTGTTAATCGACAGGAATAAATCCCGAAACAGATTTAGTCAA
* * * * * * *
10066138 CTTATTCTTG-TTTGGAAAACAAAATTAAACTGGAATAAAATCTGTTAATCGTCGGG-AATAAA-
66 CTTATTCTCGTTTTGG-AAACAAAATCAAAATAGAATAAAATCTATTAAACGGCGGGAAATAAAT
10066200 TCTCGAAACAGATTTATTTACTTAATTACTATTTGGAACC
130 TC-CGAAACAGA-TTATTTACTTAATTACTATTTGGAACC
* * * *
10066240 AAAATCCAAATATAGAATCAAATCTGTTGAA-CGATAGGAATAGATCCCGAAACAGGTTTATTCA
1 AAAATCCAAATATAGAATCAAATCTGTT-AATCGACAGGAATAAATCCCGAAACAGATTTAGTCA
*
10066304 ACTTATTCTCGTTTTGGAAATAAAATCAAAATAGAATAAAATCTATTAAACGGCGGGAAATAAAT
65 ACTTATTCTCGTTTTGGAAACAAAATCAAAATAGAATAAAATCTATTAAACGGCGGGAAATAAAT
10066369 TCCGAAACAGATTATTT
130 TCCGAAACAGATTATTT
10066386 TCCAATTTTA
Statistics
Matches: 124, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
167 100 0.81
168 22 0.18
169 2 0.02
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.31
Consensus pattern (167 bp):
AAAATCCAAATATAGAATCAAATCTGTTAATCGACAGGAATAAATCCCGAAACAGATTTAGTCAA
CTTATTCTCGTTTTGGAAACAAAATCAAAATAGAATAAAATCTATTAAACGGCGGGAAATAAATT
CCGAAACAGATTATTTACTTAATTACTATTTGGAACC
Found at i:10068748 original size:19 final size:20
Alignment explanation
Indices: 10068720--10068760 Score: 57
Period size: 19 Copynumber: 2.1 Consensus size: 20
10068710 GAAAAATAAC
*
10068720 AAAACAAAAAGAAACTA-AA
1 AAAACAAAAAAAAACTAGAA
*
10068739 AAAACTAAAAAAAACTAGAA
1 AAAACAAAAAAAAACTAGAA
10068759 AA
1 AA
10068761 TGAAACATCA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
19 15 0.79
20 4 0.21
ACGTcount: A:0.78, C:0.10, G:0.05, T:0.07
Consensus pattern (20 bp):
AAAACAAAAAAAAACTAGAA
Found at i:10068752 original size:10 final size:10
Alignment explanation
Indices: 10068720--10068760 Score: 50
Period size: 10 Copynumber: 4.1 Consensus size: 10
10068710 GAAAAATAAC
10068720 AAAAC-AAAA
1 AAAACTAAAA
10068729 AGAAACT-AAA
1 A-AAACTAAAA
10068739 AAAACTAAAA
1 AAAACTAAAA
10068749 AAAACTAGAAA
1 AAAACTA-AAA
10068760 A
1 A
10068761 TGAAACATCA
Statistics
Matches: 28, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
9 6 0.21
10 18 0.64
11 4 0.14
ACGTcount: A:0.78, C:0.10, G:0.05, T:0.07
Consensus pattern (10 bp):
AAAACTAAAA
Found at i:10072492 original size:2 final size:2
Alignment explanation
Indices: 10072485--10072509 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
10072475 TTACCCTTAT
10072485 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
10072510 GATGTTCATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:10072612 original size:2 final size:2
Alignment explanation
Indices: 10072548--10072601 Score: 108
Period size: 2 Copynumber: 27.0 Consensus size: 2
10072538 CTTGGACCAC
10072548 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
10072590 AT AT AT AT AT AT
1 AT AT AT AT AT AT
10072602 GTTATTATAT
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 52 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:10077704 original size:24 final size:25
Alignment explanation
Indices: 10077650--10077704 Score: 69
Period size: 24 Copynumber: 2.3 Consensus size: 25
10077640 GGGGAATATG
10077650 ATAATATTAAATATGACATACTTTT
1 ATAATATTAAATATGACATACTTTT
* * *
10077675 A-GATATTAAATAT-ATATATTTTT
1 ATAATATTAAATATGACATACTTTT
10077698 ATAATAT
1 ATAATAT
10077705 GATCCTATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
23 9 0.36
24 15 0.60
25 1 0.04
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (25 bp):
ATAATATTAAATATGACATACTTTT
Found at i:10078782 original size:21 final size:20
Alignment explanation
Indices: 10078747--10078805 Score: 75
Period size: 22 Copynumber: 2.8 Consensus size: 20
10078737 TTGACTTCCC
10078747 TATTTTCTATTTATTTTAATT
1 TATTTTCT-TTTATTTTAATT
10078768 ATATTTTCTTTTATTTTTAATT
1 -TATTTTCTTTTA-TTTTAATT
10078790 T-TGTTTCTTTTATTTT
1 TAT-TTTCTTTTATTTT
10078806 TCCTCAGATC
Statistics
Matches: 35, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
20 5 0.14
21 14 0.40
22 16 0.46
ACGTcount: A:0.19, C:0.05, G:0.02, T:0.75
Consensus pattern (20 bp):
TATTTTCTTTTATTTTAATT
Found at i:10078806 original size:21 final size:22
Alignment explanation
Indices: 10078747--10078806 Score: 81
Period size: 21 Copynumber: 2.8 Consensus size: 22
10078737 TTGACTTCCC
10078747 TATTTTCTATTTA-TTTTAATTA
1 TATTTTCT-TTTATTTTTAATTA
10078769 TATTTTCTTTTATTTTTAATT-
1 TATTTTCTTTTATTTTTAATTA
10078790 T-TGTTTCTTTTATTTTT
1 TAT-TTTCTTTTATTTTT
10078807 CCTCAGATCG
Statistics
Matches: 36, Mismatches: 0, Indels: 5
0.88 0.00 0.12
Matches are distributed among these distances:
20 1 0.03
21 19 0.53
22 16 0.44
ACGTcount: A:0.18, C:0.05, G:0.02, T:0.75
Consensus pattern (22 bp):
TATTTTCTTTTATTTTTAATTA
Found at i:10086137 original size:29 final size:29
Alignment explanation
Indices: 10086082--10086137 Score: 76
Period size: 29 Copynumber: 1.9 Consensus size: 29
10086072 TTTTAATATG
* *
10086082 TAATTATATACATGAACTTTGATTTTGTA
1 TAATTATATACATGAAATTTGAATTTGTA
* *
10086111 TAATTTTATACATGAAATTTTAATTTG
1 TAATTATATACATGAAATTTGAATTTG
10086138 ATCCAATTCT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 23 1.00
ACGTcount: A:0.36, C:0.05, G:0.09, T:0.50
Consensus pattern (29 bp):
TAATTATATACATGAAATTTGAATTTGTA
Found at i:10086354 original size:29 final size:30
Alignment explanation
Indices: 10086311--10086389 Score: 88
Period size: 31 Copynumber: 2.6 Consensus size: 30
10086301 TTTGAACCAC
* * *
10086311 AATTAGAGTTTCATGTGTATAATT-ACATCA
1 AATTAAAG-TTCATGTATACAATTCACATCA
*
10086341 AATTAAAGTTCATGTATACAATTGCACATTA
1 AATTAAAGTTCATGTATACAATT-CACATCA
*
10086372 AATCAAAGTTCATGTATA
1 AATTAAAGTTCATGTATA
10086390 ATTTTGAGAT
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
29 13 0.31
30 7 0.17
31 22 0.52
ACGTcount: A:0.41, C:0.11, G:0.11, T:0.37
Consensus pattern (30 bp):
AATTAAAGTTCATGTATACAATTCACATCA
Found at i:10087118 original size:18 final size:19
Alignment explanation
Indices: 10087095--10087140 Score: 60
Period size: 18 Copynumber: 2.5 Consensus size: 19
10087085 AAAAAAAATG
*
10087095 TCTAAAAACTGTAT-AAAA
1 TCTAAAAACTATATAAAAA
10087113 TCTAAAAA-TATATAAAAA
1 TCTAAAAACTATATAAAAA
*
10087131 TATAAAAACT
1 TCTAAAAACT
10087141 TTAGCTTCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 4 0.17
18 19 0.79
19 1 0.04
ACGTcount: A:0.61, C:0.09, G:0.02, T:0.28
Consensus pattern (19 bp):
TCTAAAAACTATATAAAAA
Found at i:10088963 original size:7 final size:7
Alignment explanation
Indices: 10088951--10088975 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
10088941 TTTTATAAAA
10088951 TTATATT
1 TTATATT
10088958 TTATATT
1 TTATATT
10088965 TTATATT
1 TTATATT
10088972 TTAT
1 TTAT
10088976 TTATGAATAC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (7 bp):
TTATATT
Found at i:10095677 original size:19 final size:20
Alignment explanation
Indices: 10095632--10095671 Score: 53
Period size: 20 Copynumber: 1.9 Consensus size: 20
10095622 ATATTAATTT
10095632 ATTAAAAATTTAAATATAAC
1 ATTAAAAATTTAAATATAAC
* *
10095652 AATAAAATTTTAAATCATAA
1 ATTAAAAATTTAAAT-ATAA
10095672 TTAAAACATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (20 bp):
ATTAAAAATTTAAATATAAC
Found at i:10096252 original size:14 final size:14
Alignment explanation
Indices: 10096235--10096266 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
10096225 ATGGAAACCC
10096235 ATCTATGAAAATCA
1 ATCTATGAAAATCA
*
10096249 ATCTATGGAAATCA
1 ATCTATGAAAATCA
10096263 ATCT
1 ATCT
10096267 GTTGGTTTTG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.44, C:0.16, G:0.09, T:0.31
Consensus pattern (14 bp):
ATCTATGAAAATCA
Found at i:10096867 original size:43 final size:43
Alignment explanation
Indices: 10096814--10097034 Score: 289
Period size: 43 Copynumber: 5.1 Consensus size: 43
10096804 GGGAAAATGT
* *
10096814 CGCTATAGAACGTGGTCTTTAGCGGCGCTTTCCCCACAAACGC
1 CGCTAAAGAACGTGGTCTTTAGCGGCGCTTTTCCCACAAACGC
** *
10096857 CGCTAAAGAACGTGGTCTTTAGCAACGCTTTTCCCACAAACAC
1 CGCTAAAGAACGTGGTCTTTAGCGGCGCTTTTCCCACAAACGC
* * * * *
10096900 TGCTAAAGAATGTGGTTTTTAGCGGCACTTTTCCCACAAATGC
1 CGCTAAAGAACGTGGTCTTTAGCGGCGCTTTTCCCACAAACGC
* * * *
10096943 CGCTAAAAAACGTGATTTTTAGCGGCGCTTTTCCCACAAACGT
1 CGCTAAAGAACGTGGTCTTTAGCGGCGCTTTTCCCACAAACGC
* * *
10096986 CGCTAAAGAACGTAGTCTTTAGCGGCACTTTTCCCACAAACAC
1 CGCTAAAGAACGTGGTCTTTAGCGGCGCTTTTCCCACAAACGC
10097029 CGCTAA
1 CGCTAA
10097035 CATTAACAAA
Statistics
Matches: 151, Mismatches: 27, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
43 151 1.00
ACGTcount: A:0.27, C:0.28, G:0.19, T:0.26
Consensus pattern (43 bp):
CGCTAAAGAACGTGGTCTTTAGCGGCGCTTTTCCCACAAACGC
Found at i:10100379 original size:41 final size:41
Alignment explanation
Indices: 10100328--10100627 Score: 193
Period size: 41 Copynumber: 7.3 Consensus size: 41
10100318 TTTATGGAAA
* * *
10100328 AAACGTCGCTATTG-TTTAACCTTTAGCGGCGTTTTTCTCAT
1 AAACGCCGCTAATGCTTTGACCTTTAGCGGCG-TTTTCTCAT
* * *
10100369 CAACGCCGCTAATGCTCTGACCTTTAGCGGCACTTTT-TCAT
1 AAACGCCGCTAATGCTTTGACCTTTAGCGGC-GTTTTCTCAT
* * * * * *
10100410 AAACGTCGTTAATG-TTCTGACTTTTAACGGCGCTTTCTAAT
1 AAACGCCGCTAATGCTT-TGACCTTTAGCGGCGTTTTCTCAT
* * * * * *
10100451 AAACGCCGCTAATGCTCTGATCTTTAGTGGTGCTTCCTCAT
1 AAACGCCGCTAATGCTTTGACCTTTAGCGGCGTTTTCTCAT
*
10100492 AAACGCCGCTAATGCTCTGACCTTTAGCGGCGTTTT-TACTAT
1 AAACGCCGCTAATGCTTTGACCTTTAGCGGCGTTTTCT-C-AT
* * * * * * ** *
10100534 AAATGCCGTTATTGCTTT-ACCTTTTGTGACGTTTAT-GGAA
1 AAACGCCGCTAATGCTTTGACCTTTAGCGGCGTTT-TCTCAT
* * *
10100574 AAACGCCGCTATTG-TTTTACCTTTTGCGGCGTTTTCT-ATCT
1 AAACGCCGCTAATGCTTTGACCTTTAGCGGCGTTTTCTCA--T
10100615 AAACGCCGCTAAT
1 AAACGCCGCTAAT
10100628 AACCTGTTTT
Statistics
Matches: 200, Mismatches: 47, Indels: 24
0.74 0.17 0.09
Matches are distributed among these distances:
39 5 0.03
40 32 0.16
41 127 0.63
42 36 0.18
ACGTcount: A:0.21, C:0.24, G:0.18, T:0.37
Consensus pattern (41 bp):
AAACGCCGCTAATGCTTTGACCTTTAGCGGCGTTTTCTCAT
Found at i:10100417 original size:82 final size:82
Alignment explanation
Indices: 10100328--10100541 Score: 234
Period size: 82 Copynumber: 2.6 Consensus size: 82
10100318 TTTATGGAAA
* * * *
10100328 AAACGTCGCTATTGTTTAACCTTTAGCGGCGTTTTTCTCATCAACGCCGCTAATGCTCTGACCTT
1 AAACGTCGCTAATGTTTGACCTTTAGCGGCGTTTTTCTAATAAACGCCGCTAATGCTCTGACCTT
**
10100393 TAGCGGCACTTTTTCAT
66 TAGCGGCACTTCCTCAT
* * * * *
10100410 AAACGTCGTTAATGTTCTGACTTTTAACGGCG-CTTTCTAATAAACGCCGCTAATGCTCTGATCT
1 AAACGTCGCTAATGTT-TGACCTTTAGCGGCGTTTTTCTAATAAACGCCGCTAATGCTCTGACCT
* **
10100474 TTAGTGGTGCTTCCTCAT
65 TTAGCGGCACTTCCTCAT
* * *
10100492 AAACGCCGCTAATGCTCTGACCTTTAGCGGCGTTTTTACT-ATAAATGCCG
1 AAACGTCGCTAATG-TTTGACCTTTAGCGGCGTTTTT-CTAATAAACGCCG
10100542 TTATTGCTTT
Statistics
Matches: 107, Mismatches: 21, Indels: 7
0.79 0.16 0.05
Matches are distributed among these distances:
82 80 0.75
83 25 0.23
84 2 0.02
ACGTcount: A:0.21, C:0.25, G:0.18, T:0.35
Consensus pattern (82 bp):
AAACGTCGCTAATGTTTGACCTTTAGCGGCGTTTTTCTAATAAACGCCGCTAATGCTCTGACCTT
TAGCGGCACTTCCTCAT
Found at i:10100618 original size:123 final size:123
Alignment explanation
Indices: 10100316--10100627 Score: 284
Period size: 123 Copynumber: 2.5 Consensus size: 123
10100306 GTATTAGCGG
*
10100316 CGTTTATGGAAAAAACGTCGCTATTGTTTAACCTTTAGCGGCGTTTTTCTCATC--AACGCCGCT
1 CGTTTATGG-AAAAACGCCGCTATTGTTTAACCTTTAGCGGCG-TTTTCT-ATCTAAACGCCGCT
* *
10100379 AATGCTCTGACCTTTAGCGGCACTTTTTCATAAACGTCGTTAATGTTCTGACTTTTAACGG
63 AATGCTCTGACCTTTAGCGGCACTTTTTCATAAACGCCGTTAATGTTCTGACTTTTAACGA
* * * * * * * * *
10100440 CGCTTTCT--AATAAACGCCGCTAATGCTCTGATCTTTAGTGGTG-CTTC-CTCATAAACGCCGC
1 CG-TTTATGGAA-AAACGCCGCTATTG-TTTAACCTTTAGCGGCGTTTTCTATC-TAAACGCCGC
* * * **
10100501 TAATGCTCTGACCTTTAGCGGC-GTTTTTACTATAAATGCCGTTATTGCTT-T-ACCTTTT-GTG
62 TAATGCTCTGACCTTTAGCGGCACTTTTT-C-ATAAACGCCGTTAATG-TTCTGA-CTTTTAACG
10100562 A
123 A
* *
10100563 CGTTTATGGAAAAACGCCGCTATTGTTTTACCTTTTGCGGCGTTTTCTATCTAAACGCCGCTAAT
1 CGTTTATGGAAAAACGCCGCTATTGTTTAACCTTTAGCGGCGTTTTCTATCTAAACGCCGCTAAT
10100628 AACCTGTTTT
Statistics
Matches: 147, Mismatches: 27, Indels: 29
0.72 0.13 0.14
Matches are distributed among these distances:
120 2 0.01
122 25 0.17
123 77 0.52
124 37 0.25
125 6 0.04
ACGTcount: A:0.21, C:0.23, G:0.18, T:0.37
Consensus pattern (123 bp):
CGTTTATGGAAAAACGCCGCTATTGTTTAACCTTTAGCGGCGTTTTCTATCTAAACGCCGCTAAT
GCTCTGACCTTTAGCGGCACTTTTTCATAAACGCCGTTAATGTTCTGACTTTTAACGA
Found at i:10102228 original size:42 final size:42
Alignment explanation
Indices: 10102177--10102375 Score: 229
Period size: 42 Copynumber: 4.7 Consensus size: 42
10102167 TTATGAGGAG
***
10102177 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTTTGAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTCCCAC
* * * * *
10102219 AAATGCCGCTATAGATCATGGTCTTTAGCGGCGCTTTCCCAA
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTCCCAC
* * *
10102261 AAATGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTCCCAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGC-GTTTTCCCAC
* *
10102304 AAACGCCGCTAAAGAACGTGGTCTTTAGCGGCGCTTTTCTCAC
1 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCG-TTTTCCCAC
* * *
10102347 AAACGCCGCGAAAG-TCATGTTCTTTAGCG
1 AAACGCCGCTAAAGAACATGGTCTTTAGCG
10102376 ACACTTTTCC
Statistics
Matches: 132, Mismatches: 23, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
42 75 0.57
43 57 0.43
ACGTcount: A:0.26, C:0.25, G:0.22, T:0.27
Consensus pattern (42 bp):
AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTCCCAC
Found at i:10102371 original size:85 final size:85
Alignment explanation
Indices: 10102177--10102390 Score: 252
Period size: 85 Copynumber: 2.5 Consensus size: 85
10102167 TTATGAGGAG
* * ** * * *
10102177 AAACGCCGCTAAAGAACATGGTCTTTAGCGGCGTTTTT-TGACAAATGCCGCTATAGATCATGGT
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTCCCACAAACGCCGCTAAAGAACATGGT
10102241 CTTTAGCGGCGCTTTCCCAA
66 CTTTAGCGGCGCTTTCCCAA
* *
10102261 AAATGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTCCCACAAACGCCGCTAAAGAACGTGGT
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTCCCACAAACGCCGCTAAAGAACATGGT
* *
10102326 CTTTAGCGGCGCTTTTCTCAC
66 CTTTAGCGGCGC-TTTCCCAA
* * * * *
10102347 AAACGCCGCGAAAG-TCATGTTCTTTAGCGACACTTTTCCACACA
1 AAACGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTCC-CACA
10102391 CACCATTAAC
Statistics
Matches: 110, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
84 35 0.32
85 53 0.48
86 22 0.20
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.27
Consensus pattern (85 bp):
AAACGCCGCTAAAGAACATGATCTTTAGCGGCATTTTTCCCACAAACGCCGCTAAAGAACATGGT
CTTTAGCGGCGCTTTCCCAA
Found at i:10105386 original size:19 final size:21
Alignment explanation
Indices: 10105357--10105406 Score: 59
Period size: 20 Copynumber: 2.5 Consensus size: 21
10105347 AAAGGGTAAT
* *
10105357 AGAACAAAGGA-AATCTGAAG
1 AGAACAAAGGAGAAACTAAAG
10105377 AGAA-AAAGGAGAAACTAAAG
1 AGAACAAAGGAGAAACTAAAG
*
10105397 AGAACCAAGG
1 AGAACAAAGG
10105407 GTTGGGAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
19 6 0.24
20 15 0.60
21 4 0.16
ACGTcount: A:0.58, C:0.10, G:0.26, T:0.06
Consensus pattern (21 bp):
AGAACAAAGGAGAAACTAAAG
Found at i:10106258 original size:41 final size:41
Alignment explanation
Indices: 10106213--10106372 Score: 218
Period size: 41 Copynumber: 3.9 Consensus size: 41
10106203 TATTATTGAG
*
10106213 CTTTAGCGGCGCTTCTTCATAAGCGCCGCTATTGCCCTGAC
1 CTTTAGCGGCGCTTCTCCATAAGCGCCGCTATTGCCCTGAC
* *
10106254 CTTTAGCGGCGCTTCCCCATAAGCGCCACTATTGCCCT-AC
1 CTTTAGCGGCGCTTCTCCATAAGCGCCGCTATTGCCCTGAC
* * *
10106294 CTTTTGCGGCGCTTAC-CCATAAGCGCCGCTATTTCTCTGAC
1 CTTTAGCGGCGCTT-CTCCATAAGCGCCGCTATTGCCCTGAC
*
10106335 ATTTAGCGGCGCTT-TCCCATAAGCGCCGCTATTGCCCT
1 CTTTAGCGGCGCTTCT-CCATAAGCGCCGCTATTGCCCT
10106373 ACCCGCGGTT
Statistics
Matches: 104, Mismatches: 11, Indels: 8
0.85 0.09 0.07
Matches are distributed among these distances:
40 34 0.33
41 70 0.67
ACGTcount: A:0.16, C:0.36, G:0.20, T:0.29
Consensus pattern (41 bp):
CTTTAGCGGCGCTTCTCCATAAGCGCCGCTATTGCCCTGAC
Found at i:10106354 original size:81 final size:81
Alignment explanation
Indices: 10106213--10106375 Score: 247
Period size: 81 Copynumber: 2.0 Consensus size: 81
10106203 TATTATTGAG
* *
10106213 CTTTAGCGGCGCTTCTTCATAAGCGCCGCTATTGCCCTGACCTTTAGCGGCGCTTCCCCATAAGC
1 CTTTAGCGGCGCTTCTCCATAAGCGCCGCTATTGCCCTGACATTTAGCGGCGCTTCCCCATAAGC
10106278 GCCACTATTGCCCTAC
66 GCCACTATTGCCCTAC
* * * *
10106294 CTTTTGCGGCGCTTAC-CCATAAGCGCCGCTATTTCTCTGACATTTAGCGGCGCTTTCCCATAAG
1 CTTTAGCGGCGCTT-CTCCATAAGCGCCGCTATTGCCCTGACATTTAGCGGCGCTTCCCCATAAG
*
10106358 CGCCGCTATTGCCCTAC
65 CGCCACTATTGCCCTAC
10106375 C
1 C
10106376 CGCGGTTGCC
Statistics
Matches: 74, Mismatches: 7, Indels: 2
0.89 0.08 0.02
Matches are distributed among these distances:
81 73 0.99
82 1 0.01
ACGTcount: A:0.16, C:0.36, G:0.20, T:0.28
Consensus pattern (81 bp):
CTTTAGCGGCGCTTCTCCATAAGCGCCGCTATTGCCCTGACATTTAGCGGCGCTTCCCCATAAGC
GCCACTATTGCCCTAC
Found at i:10106449 original size:96 final size:96
Alignment explanation
Indices: 10106285--10106471 Score: 329
Period size: 96 Copynumber: 1.9 Consensus size: 96
10106275 AGCGCCACTA
* *
10106285 TTGCCCTACCTTTTGCGGCGCTTACCCATAAGCGCCGCTATTTCTCTGACATTTAGCGGCGCTTT
1 TTGCCCTACCTTTTGCGGCGCTTACCCATAAGCGCCACTATTTCCCTGACATTTAGCGGCGCTTT
10106350 CCCATAAGCGCCGCTATTGCCCTACCCGCGG
66 CCCATAAGCGCCGCTATTGCCCTACCCGCGG
* * *
10106381 TTGCCTTACCTTTTGCGGCGCTTTCCCATAAGCGCCACTATTTCCCTGACCTTTAGCGGCGCTTT
1 TTGCCCTACCTTTTGCGGCGCTTACCCATAAGCGCCACTATTTCCCTGACATTTAGCGGCGCTTT
10106446 CCCATAAGCGCCGCTATTGCCCTACC
66 CCCATAAGCGCCGCTATTGCCCTACC
10106472 TTTTGCGGCG
Statistics
Matches: 86, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
96 86 1.00
ACGTcount: A:0.14, C:0.37, G:0.19, T:0.29
Consensus pattern (96 bp):
TTGCCCTACCTTTTGCGGCGCTTACCCATAAGCGCCACTATTTCCCTGACATTTAGCGGCGCTTT
CCCATAAGCGCCGCTATTGCCCTACCCGCGG
Found at i:10106484 original size:40 final size:40
Alignment explanation
Indices: 10106381--10106526 Score: 195
Period size: 40 Copynumber: 3.6 Consensus size: 40
10106371 CTACCCGCGG
* *
10106381 TTGCCTTACCTTTTGCGGCGCTTTCCCATAAGCGCCACTA
1 TTGCCCTACCTTTTGCGGCGCTTTCCCATAAGCGCCGCTA
* *
10106421 TTTCCCTGACCTTTAGCGGCGCTTTCCCATAAGCGCCGCTA
1 TTGCCCT-ACCTTTTGCGGCGCTTTCCCATAAGCGCCGCTA
** *
10106462 TTGCCCTACCTTTTGCGGCGCTTAT-GGAAAAGCGCCGCTA
1 TTGCCCTACCTTTTGCGGCGCTT-TCCCATAAGCGCCGCTA
*
10106502 TTGCCCTACCTTTTGCGGCGTTTTC
1 TTGCCCTACCTTTTGCGGCGCTTTC
10106527 TATCTAAACG
Statistics
Matches: 93, Mismatches: 10, Indels: 6
0.85 0.09 0.06
Matches are distributed among these distances:
39 1 0.01
40 54 0.58
41 38 0.41
ACGTcount: A:0.14, C:0.34, G:0.21, T:0.32
Consensus pattern (40 bp):
TTGCCCTACCTTTTGCGGCGCTTTCCCATAAGCGCCGCTA
Found at i:10112182 original size:29 final size:30
Alignment explanation
Indices: 10112139--10112219 Score: 103
Period size: 29 Copynumber: 2.7 Consensus size: 30
10112129 GAATTAGATC
*
10112139 AAATCAAAATTTCATATATAAAATTACACA-
1 AAATCAAAA-TTCATGTATAAAATTACACAT
*
10112169 AAATCAAAATTCATGTATATAATTACACATT
1 AAATCAAAATTCATGTATAAAATTACACA-T
10112200 AAAT-AATAATTCATGTATAA
1 AAATCAA-AATTCATGTATAA
10112220 TTTTAAAATT
Statistics
Matches: 45, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
29 18 0.40
30 11 0.24
31 16 0.36
ACGTcount: A:0.53, C:0.11, G:0.02, T:0.33
Consensus pattern (30 bp):
AAATCAAAATTCATGTATAAAATTACACAT
Found at i:10114715 original size:30 final size:30
Alignment explanation
Indices: 10114650--10114731 Score: 94
Period size: 30 Copynumber: 2.7 Consensus size: 30
10114640 AAATTTTAAA
* *
10114650 TTAATAAATATAAAATTATATTTTAGTCTCT
1 TTAA-AAATATAAAATTATAATTTAATCTCT
*
10114681 TTAAAAATGATAAAATTTTAATTTAATC-CT
1 TTAAAAAT-ATAAAATTATAATTTAATCTCT
*
10114711 TTAAAAATTATAAAAATATAA
1 TTAAAAA-TATAAAATTATAA
10114732 AAAATTTAAT
Statistics
Matches: 44, Mismatches: 5, Indels: 5
0.81 0.09 0.09
Matches are distributed among these distances:
30 23 0.52
31 21 0.48
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (30 bp):
TTAAAAATATAAAATTATAATTTAATCTCT
Found at i:10116111 original size:29 final size:30
Alignment explanation
Indices: 10116062--10116156 Score: 127
Period size: 30 Copynumber: 3.2 Consensus size: 30
10116052 TTGCCTAAAA
10116062 AACCCCTAAACTTTTTAAAAATTTAAATTT
1 AACCCCTAAACTTTTTAAAAATTTAAATTT
*
10116092 AACCCTTAAACTTTTTAAAAATTTAAATTT
1 AACCCCTAAACTTTTTAAAAATTTAAATTT
* * *** *
10116122 AACCTCAAAACTTCCAAAAAATTTAGATTT
1 AACCCCTAAACTTTTTAAAAATTTAAATTT
10116152 AACCC
1 AACCC
10116157 TCGAACTTCC
Statistics
Matches: 56, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 56 1.00
ACGTcount: A:0.44, C:0.19, G:0.01, T:0.36
Consensus pattern (30 bp):
AACCCCTAAACTTTTTAAAAATTTAAATTT
Found at i:10116164 original size:30 final size:29
Alignment explanation
Indices: 10116078--10116370 Score: 140
Period size: 30 Copynumber: 9.9 Consensus size: 29
10116068 TAAACTTTTT
* * **
10116078 AAAAATTTAAATTTAACCCTTAAACTTTTT
1 AAAAATTTAGATTTAACCCTCAAAC-TTCC
*
10116108 AAAAATTTAAATTTAA-CCTCAAAACTTCC
1 AAAAATTTAGATTTAACCCTC-AAACTTCC
*
10116137 AAAAAATTTAGATTTAACCCTCGAACTTCCC
1 -AAAAATTTAGATTTAACCCTCAAACTT-CC
* * *
10116168 AAAAATTTAGATTTGATCCTCGAACTTTCC
1 AAAAATTTAGATTTAACCCTCAAAC-TTCC
10116198 AAAAATTT-GTATTTAACCC-CTAAACTTCC
1 AAAAATTTAG-ATTTAACCCTC-AAACTTCC
* * * *
10116227 TAAAA-TCACATTTTAACCCTTAAACTTTCC
1 AAAAATTTAGA-TTTAACCCTCAAAC-TTCC
* * * *
10116257 TAAAA-TCACATTTTGACCCT-AAACTTTCC
1 AAAAATTTAGA-TTTAACCCTCAAAC-TTCC
* * *
10116286 CAAAA--TACATTTTAACCCCCTAAACTTTCC
1 AAAAATTTAGA-TTTAACCCTC-AAAC-TTCC
* * * *
10116316 AAAAAATCACATTTTA-CCTCAAACTTTCC
1 AAAAATTTAGATTTAACCCTCAAAC-TTCC
*
10116345 AAAAA-TTACATTTTAACCCT-AAACTT
1 AAAAATTTAGA-TTTAACCCTCAAACTT
10116371 TTTGAAAATT
Statistics
Matches: 221, Mismatches: 25, Indels: 36
0.78 0.09 0.13
Matches are distributed among these distances:
28 19 0.09
29 62 0.28
30 125 0.57
31 12 0.05
32 3 0.01
ACGTcount: A:0.40, C:0.24, G:0.02, T:0.34
Consensus pattern (29 bp):
AAAAATTTAGATTTAACCCTCAAACTTCC
Found at i:10116241 original size:29 final size:30
Alignment explanation
Indices: 10116209--10116426 Score: 229
Period size: 29 Copynumber: 7.4 Consensus size: 30
10116199 AAAATTTGTA
10116209 TTTAACCCCTAAAC-TTCCTAAAATCACAT
1 TTTAACCCCTAAACTTTCCTAAAATCACAT
*
10116238 TTTAACCCTTAAACTTTCCTAAAATCACAT
1 TTTAACCCCTAAACTTTCCTAAAATCACAT
* *
10116268 TTTGA-CCCTAAACTTTCCCAAAAT-ACAT
1 TTTAACCCCTAAACTTTCCTAAAATCACAT
*
10116296 TTTAACCCCCTAAACTTTCCAAAAAATCACAT
1 TTTAA-CCCCTAAACTTTCC-TAAAATCACAT
* * *
10116328 TTT-ACCTC-AAACTTTCCAAAAATTACAT
1 TTTAACCCCTAAACTTTCCTAAAATCACAT
* *
10116356 TTTAA-CCCTAAACTTT-TTGAAAATTACAT
1 TTTAACCCCTAAACTTTCCT-AAAATCACAT
* * *
10116385 TTTAACCCCTAAATTTGTAC-AAAATTACAT
1 TTTAACCCCTAAACTT-TCCTAAAATCACAT
10116415 TTTAA-CCCTAAA
1 TTTAACCCCTAAA
10116427 TTCTCTGAAA
Statistics
Matches: 165, Mismatches: 13, Indels: 22
0.82 0.06 0.11
Matches are distributed among these distances:
28 23 0.14
29 69 0.42
30 59 0.36
31 7 0.04
32 7 0.04
ACGTcount: A:0.39, C:0.26, G:0.01, T:0.34
Consensus pattern (30 bp):
TTTAACCCCTAAACTTTCCTAAAATCACAT
Found at i:10116291 original size:59 final size:58
Alignment explanation
Indices: 10116215--10116423 Score: 223
Period size: 59 Copynumber: 3.6 Consensus size: 58
10116205 TGTATTTAAC
* *
10116215 CCCTAAAC-TTCCTAAAATCACATTTTAACCCTTAAACTTTCCTAAAATCACATTTTGA
1 CCCTAAACTTTCCCAAAATTACATTTTAACCCTTAAACTTTCCTAAAATCACATTTT-A
* *
10116273 CCCTAAACTTTCCCAAAA-TACATTTTAACCCCCTAAACTTTCCAAAAAATCACATTTTA
1 CCCTAAACTTTCCCAAAATTACATTTTAA-CCCTTAAACTTTCC-TAAAATCACATTTTA
* * *
10116332 -CCTCAAACTTTCCAAAAATTACATTTTAACCC-TAAACTTT-TTGAAAATTACATTTTAA
1 CCCT-AAACTTTCCCAAAATTACATTTTAACCCTTAAACTTTCCT-AAAATCACATTTT-A
**
10116390 CCCCTAAA-TTTGTACAAAATTACATTTTAACCCT
1 -CCCTAAACTTT-CCCAAAATTACATTTTAACCCT
10116424 AAATTCTCTG
Statistics
Matches: 129, Mismatches: 11, Indels: 20
0.81 0.07 0.12
Matches are distributed among these distances:
57 12 0.09
58 32 0.25
59 59 0.46
60 26 0.20
ACGTcount: A:0.38, C:0.26, G:0.01, T:0.34
Consensus pattern (58 bp):
CCCTAAACTTTCCCAAAATTACATTTTAACCCTTAAACTTTCCTAAAATCACATTTTA
Found at i:10116340 original size:88 final size:88
Alignment explanation
Indices: 10116209--10116423 Score: 265
Period size: 88 Copynumber: 2.4 Consensus size: 88
10116199 AAAATTTGTA
* * * *
10116209 TTTAACCCCTAAACTTCCTAAAATCACATTTTAACCCTTAAACTTTCCTAAAATCACATTTTGAC
1 TTTAACCCCTAAACTTCCAAAAATCACATTTTAACCCTCAAACTTTCCAAAAATCACATTTTAAC
10116274 CCTAAACTTTCCCAAAA-TACAT
66 CCTAAACTTTCCCAAAATTACAT
*
10116296 TTTAACCCCCTAAACTTTCCAAAAAATCACATTTT-A-CCTCAAACTTTCCAAAAATTACATTTT
1 TTTAA-CCCCTAAAC-TTCC-AAAAATCACATTTTAACCCTCAAACTTTCCAAAAATCACATTTT
***
10116359 AACCCTAAACTTTTTGAAAATTACAT
63 AACCCTAAACTTTCCCAAAATTACAT
* ** *
10116385 TTTAACCCCTAAATTTGTACAAAATTACATTTTAACCCT
1 TTTAACCCCTAAACTTCCA-AAAATCACATTTTAACCCT
10116424 AAATTCTCTG
Statistics
Matches: 109, Mismatches: 12, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
86 1 0.01
87 19 0.17
88 58 0.53
89 18 0.17
90 13 0.12
ACGTcount: A:0.38, C:0.26, G:0.01, T:0.35
Consensus pattern (88 bp):
TTTAACCCCTAAACTTCCAAAAATCACATTTTAACCCTCAAACTTTCCAAAAATCACATTTTAAC
CCTAAACTTTCCCAAAATTACAT
Found at i:10120926 original size:19 final size:20
Alignment explanation
Indices: 10120890--10120927 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 20
10120880 CATATTCTGT
*
10120890 TAAATAAAAATAATATTTAA
1 TAAATAAAAATAACATTTAA
*
10120910 TAAAT-AAAATTACATTTA
1 TAAATAAAAATAACATTTA
10120928 TTTATTTTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
19 11 0.69
20 5 0.31
ACGTcount: A:0.61, C:0.03, G:0.00, T:0.37
Consensus pattern (20 bp):
TAAATAAAAATAACATTTAA
Found at i:10121784 original size:2 final size:2
Alignment explanation
Indices: 10121777--10121802 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
10121767 AGATAATGTC
10121777 TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA
10121803 GACAATGGCC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:10125976 original size:11 final size:11
Alignment explanation
Indices: 10125962--10126013 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
10125952 AAGTTGTAAA
10125962 TATTTTTTTAT
1 TATTTTTTTAT
* *
10125973 TATTTATTTAA
1 TATTTTTTTAT
*
10125984 TATTTTTCTAT
1 TATTTTTTTAT
* *
10125995 AACTTTTTTTTT
1 TA-TTTTTTTAT
10126007 TATTTTT
1 TATTTTT
10126014 ATCATTTTTT
Statistics
Matches: 31, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
11 23 0.74
12 8 0.26
ACGTcount: A:0.21, C:0.04, G:0.00, T:0.75
Consensus pattern (11 bp):
TATTTTTTTAT
Found at i:10126796 original size:18 final size:17
Alignment explanation
Indices: 10126773--10126810 Score: 58
Period size: 18 Copynumber: 2.2 Consensus size: 17
10126763 AACTTATTTA
*
10126773 TATAAAAATATTATATAT
1 TATAAAAATAATATAT-T
10126791 TATAAAAATAATATATT
1 TATAAAAATAATATATT
10126808 TAT
1 TAT
10126811 TCATGAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 4 0.21
18 15 0.79
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
TATAAAAATAATATATT
Found at i:10126811 original size:20 final size:18
Alignment explanation
Indices: 10126766--10126826 Score: 61
Period size: 20 Copynumber: 3.2 Consensus size: 18
10126756 TGGATATAAC
10126766 TTATTTA-TATAAAAATA
1 TTATTTATTATAAAAATA
*
10126783 TTATATATTATAAAAATAA
1 TTATTTATTATAAAAAT-A
*
10126802 TATATTTATTCATGAAAAATG
1 T-TATTTATT-AT-AAAAATA
10126823 TTAT
1 TTAT
10126827 AATTTTTTAT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
17 6 0.17
18 9 0.25
19 2 0.06
20 10 0.28
21 3 0.08
22 6 0.17
ACGTcount: A:0.49, C:0.02, G:0.03, T:0.46
Consensus pattern (18 bp):
TTATTTATTATAAAAATA
Found at i:10129750 original size:21 final size:21
Alignment explanation
Indices: 10129726--10129779 Score: 81
Period size: 21 Copynumber: 2.6 Consensus size: 21
10129716 GAAATTTAAA
*
10129726 ACAAACATAATGATGAGAGTT
1 ACAAACATAATGAGGAGAGTT
**
10129747 ACAAACATTTTGAGGAGAGTT
1 ACAAACATAATGAGGAGAGTT
10129768 ACAAACATAATG
1 ACAAACATAATG
10129780 TTTTGTAGGT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 28 1.00
ACGTcount: A:0.46, C:0.11, G:0.19, T:0.24
Consensus pattern (21 bp):
ACAAACATAATGAGGAGAGTT
Found at i:10135337 original size:107 final size:108
Alignment explanation
Indices: 10135202--10135406 Score: 322
Period size: 107 Copynumber: 1.9 Consensus size: 108
10135192 AACACTTATT
* * * * *
10135202 GATTTTGAATAAGATATTCAGTTACTTAGGTTTAAAGAAAAATAAACCTAATA-GTTAGGGCACA
1 GATTTTAAATAAGATATTCAATTACTTAGGTTCAAAGAAAAATAAACCCAATACGTTAGGACACA
*
10135266 ATTTATCGAGTTCCCTAAAATAAAAGAACATTGAACATTTGTC
66 ATTTATAGAGTTCCCTAAAATAAAAGAACATTGAACATTTGTC
* *
10135309 GATTTTAAATAGGATATTCAATTACTTAGGTTCAAAGAAAAATATACCCAATACGTTAGGACACA
1 GATTTTAAATAAGATATTCAATTACTTAGGTTCAAAGAAAAATAAACCCAATACGTTAGGACACA
*
10135374 ATTTCTAGAGTTCCCTAAAATAAAAGAACATTG
66 ATTTATAGAGTTCCCTAAAATAAAAGAACATTG
10135407 CCTCGATTTT
Statistics
Matches: 88, Mismatches: 9, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
107 47 0.53
108 41 0.47
ACGTcount: A:0.42, C:0.13, G:0.14, T:0.31
Consensus pattern (108 bp):
GATTTTAAATAAGATATTCAATTACTTAGGTTCAAAGAAAAATAAACCCAATACGTTAGGACACA
ATTTATAGAGTTCCCTAAAATAAAAGAACATTGAACATTTGTC
Found at i:10135737 original size:18 final size:18
Alignment explanation
Indices: 10135700--10135738 Score: 53
Period size: 19 Copynumber: 2.2 Consensus size: 18
10135690 ATAAAGTGAT
10135700 AAAAGGATTAAATTCTAAA
1 AAAAGGATTAAATTC-AAA
*
10135719 AAAGGGATTAAATT-AAA
1 AAAAGGATTAAATTCAAA
10135736 AAA
1 AAA
10135739 GATATAAAAC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 6 0.32
19 13 0.68
ACGTcount: A:0.62, C:0.03, G:0.13, T:0.23
Consensus pattern (18 bp):
AAAAGGATTAAATTCAAA
Found at i:10137738 original size:45 final size:44
Alignment explanation
Indices: 10137687--10138199 Score: 433
Period size: 45 Copynumber: 12.0 Consensus size: 44
10137677 TGAGATTGTA
* * * *
10137687 GCTTCAATCTGCCCTTTTGAATTTAGGGGTAAGAGATTGGA-AGTA
1 GCTTCAATCTGCCCTCTTG-A-TTAGGGGTAAAAGATTGGATGGTG
10137732 GCTTCAATCTGCCCCTCTTGATTAGGGGTAAAAGATTGGATGGTG
1 GCTTCAATCTG-CCCTCTTGATTAGGGGTAAAAGATTGGATGGTG
* * * * * *
10137777 GCTTTAATCTTTCCTTTTTGATTA-GGATAAAAAATTGGATGGTG
1 GCTTCAATC-TGCCCTCTTGATTAGGGGTAAAAGATTGGATGGTG
* *
10137821 GCTTCAATCTGCCTCTCTTGACTTAAGGGTAGAAGATTGGATGGTG
1 GCTTCAATCTGCC-CTCTTGA-TTAGGGGTAAAAGATTGGATGGTG
* **
10137867 GCTTCAATCTACCTCTCTTGATTAAAGGTAAAAGATTGGATGGTG
1 GCTTCAATCTGCC-CTCTTGATTAGGGGTAAAAGATTGGATGGTG
* * *
10137912 ACTAT-AATCTGCCCTTTTTTATTAGGGGTAAAAGATTGGATGGTG
1 GCT-TCAATCTGCCC-TCTTGATTAGGGGTAAAAGATTGGATGGTG
10137957 GCTTCAATCTGCCACTCTTGATTAGGGGTAAAAGATTGGATGGT-
1 GCTTCAATCTGCC-CTCTTGATTAGGGGTAAAAGATTGGATGGTG
* * * * *
10138001 -CTTCAATTTACCCTCTAG-TTA-TGGTAAAATATTGGATGGT-
1 GCTTCAATCTGCCCTCTTGATTAGGGGTAAAAGATTGGATGGTG
* * *
10138041 -CTTCATTCTACCCTC-TGGTTA-GGGTAAAAGATTGGA---TG
1 GCTTCAATCTGCCCTCTTGATTAGGGGTAAAAGATTGGATGGTG
* * * *
10138079 ACTTTAATCTGCCC-CATGGTTA-GGGTAAAAGATTGGATGGTG
1 GCTTCAATCTGCCCTCTTGATTAGGGGTAAAAGATTGGATGGTG
* * *
10138121 TCTTCAATCTGCCC-CATGGTTA-GGGTAAAAGATTGGAT--T-
1 GCTTCAATCTGCCCTCTTGATTAGGGGTAAAAGATTGGATGGTG
** * * *
10138160 GCTTCAATCTTACC-CATGGTT-GGAGTAAAAGATTGGATGG
1 GCTTCAATCTGCCCTCTTGATTAGGGGTAAAAGATTGGATGG
10138200 AATGATGTAA
Statistics
Matches: 400, Mismatches: 48, Indels: 44
0.81 0.10 0.09
Matches are distributed among these distances:
37 1 0.00
38 1 0.00
39 65 0.16
40 47 0.12
41 3 0.01
42 43 0.11
43 13 0.03
44 51 0.13
45 129 0.32
46 47 0.12
ACGTcount: A:0.26, C:0.15, G:0.25, T:0.34
Consensus pattern (44 bp):
GCTTCAATCTGCCCTCTTGATTAGGGGTAAAAGATTGGATGGTG
Found at i:10138029 original size:40 final size:39
Alignment explanation
Indices: 10137937--10138199 Score: 262
Period size: 39 Copynumber: 6.5 Consensus size: 39
10137927 TTTTTATTAG
* *
10137937 GGGTAAAAGATTGGATGGTGGCTTCAATCTGCCACTCTTGATTA
1 GGGTAAAAGATTGGATGGT--CTTCAATCTACC-C-C-TGGTTA
* *
10137981 GGGGTAAAAGATTGGATGGTCTTCAATTTACCCTCTAGTTA
1 -GGGTAAAAGATTGGATGGTCTTCAATCTACCC-CTGGTTA
* * *
10138022 TGGTAAAATATTGGATGGTCTTCATTCTACCCTCTGGTTA
1 GGGTAAAAGATTGGATGGTCTTCAATCTACCC-CTGGTTA
* * *
10138062 GGGTAAAAGATTGGAT-GACTTTAATCTGCCCCATGGTTA
1 GGGTAAAAGATTGGATGGTCTTCAATCTACCCC-TGGTTA
*
10138101 GGGTAAAAGATTGGATGGTGTCTTCAATCTGCCCCATGGTTA
1 GGGTAAAAGATTGGAT-G-GTCTTCAATCTACCCC-TGGTTA
* *
10138143 GGGTAAAAGATTGGATTG-CTTCAATCTTACCCATGGTT-
1 GGGTAAAAGATTGGATGGTCTTCAATC-TACCCCTGGTTA
10138181 GGAGTAAAAGATTGGATGG
1 GG-GTAAAAGATTGGATGG
10138200 AATGATGTAA
Statistics
Matches: 191, Mismatches: 21, Indels: 18
0.83 0.09 0.08
Matches are distributed among these distances:
38 3 0.02
39 61 0.32
40 54 0.28
41 4 0.02
42 40 0.21
43 10 0.05
45 19 0.10
ACGTcount: A:0.26, C:0.15, G:0.26, T:0.33
Consensus pattern (39 bp):
GGGTAAAAGATTGGATGGTCTTCAATCTACCCCTGGTTA
Found at i:10144146 original size:25 final size:25
Alignment explanation
Indices: 10144118--10144243 Score: 76
Period size: 25 Copynumber: 5.0 Consensus size: 25
10144108 AGACAATGAA
*
10144118 GATATTTTGTTTGGCTCGAAAGAGC
1 GATATTTTGTCTGGCTCGAAAGAGC
** * *
10144143 GATATTCAGTCTGGCTAGTAAGAGC
1 GATATTTTGTCTGGCTCGAAAGAGC
* * * *
10144168 GATATTCTGAATTTTGGCT-TATGAGAGC
1 GATATTTTG---TCTGGCTCGA-AAGAGC
* *
10144196 GATATTTTGTCTAGCTTG-AAGAGC
1 GATATTTTGTCTGGCTCGAAAGAGC
* * *
10144220 GTTATTTTGCCTGGCTCGTAAGAG
1 GATATTTTGTCTGGCTCGAAAGAG
10144244 TGAAAATCTA
Statistics
Matches: 76, Mismatches: 19, Indels: 12
0.71 0.18 0.11
Matches are distributed among these distances:
24 19 0.25
25 38 0.50
28 19 0.25
ACGTcount: A:0.24, C:0.13, G:0.27, T:0.36
Consensus pattern (25 bp):
GATATTTTGTCTGGCTCGAAAGAGC
Found at i:10144986 original size:21 final size:21
Alignment explanation
Indices: 10144941--10144988 Score: 62
Period size: 21 Copynumber: 2.3 Consensus size: 21
10144931 CTAGAGTTTA
*
10144941 TTGTATTGGTAAAAGCATGAG
1 TTGTATTGGTAAAAGCATGAC
*
10144962 TTGTTTTGGTAAAAGTCAT-AC
1 TTGTATTGGTAAAAG-CATGAC
10144983 TTGTAT
1 TTGTAT
10144989 CGATAAAACC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
21 20 0.87
22 3 0.13
ACGTcount: A:0.29, C:0.06, G:0.23, T:0.42
Consensus pattern (21 bp):
TTGTATTGGTAAAAGCATGAC
Found at i:10147316 original size:21 final size:22
Alignment explanation
Indices: 10147292--10147336 Score: 65
Period size: 22 Copynumber: 2.1 Consensus size: 22
10147282 ATTGTAAGGT
*
10147292 ATGAA-TAAAAATGTTTGTCAA
1 ATGAATTAAAAATATTTGTCAA
*
10147313 ATGAATTTAAAATATTTGTCAA
1 ATGAATTAAAAATATTTGTCAA
10147335 AT
1 AT
10147337 AAGACAGAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.47, C:0.04, G:0.11, T:0.38
Consensus pattern (22 bp):
ATGAATTAAAAATATTTGTCAA
Found at i:10158407 original size:25 final size:25
Alignment explanation
Indices: 10158365--10158588 Score: 216
Period size: 25 Copynumber: 8.9 Consensus size: 25
10158355 TTTAGCTCTA
10158365 ACGAGCCCAGACAGAATATCGCTCAT
1 ACGAG-CCAGACAGAATATCGCTCAT
* * **
10158391 ACGAGTCAGACAAAATATCGCTTTT
1 ACGAGCCAGACAGAATATCGCTCAT
*
10158416 ACGAGCCAGACAGAATATTGCTCAT
1 ACGAGCCAGACAGAATATCGCTCAT
* * *
10158441 TCGAGCCAAACAGAATATCGCTCTT
1 ACGAGCCAGACAGAATATCGCTCAT
* *
10158466 ACGAGCCAGACAAAATATTGCTCAT
1 ACGAGCCAGACAGAATATCGCTCAT
* * * * *
10158491 ATGAGCCAAATAGAATATTGCTCTT
1 ACGAGCCAGACAGAATATCGCTCAT
* *
10158516 ACGAGCCAGACAAAATTTCGCTCAT
1 ACGAGCCAGACAGAATATCGCTCAT
* * *
10158541 GCAAGCCAGACAGAATATTGCTCAT
1 ACGAGCCAGACAGAATATCGCTCAT
** *
10158566 GTGAGCTAGACAGACATA-CGCTC
1 ACGAGCCAGACAGA-ATATCGCTC
10158589 TTAAGAGCTT
Statistics
Matches: 158, Mismatches: 39, Indels: 3
0.79 0.19 0.01
Matches are distributed among these distances:
25 150 0.95
26 8 0.05
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (25 bp):
ACGAGCCAGACAGAATATCGCTCAT
Found at i:10158498 original size:75 final size:75
Alignment explanation
Indices: 10158359--10158596 Score: 264
Period size: 75 Copynumber: 3.2 Consensus size: 75
10158349 CCAAAATTTA
* * * ** *
10158359 GCTCTAACGAGCCCAGACAGAATATCGCTCATACGAGTCAGACAAAATATCGCTTTTACGAGCCA
1 GCTCTTACGAG-CCAGACAGAATATCGCTCATACGAGCCAGACAAAATATTGCTCATATGAGCCA
10158424 GACAGAATATT
65 GACAGAATATT
* *
10158435 GCTCATT-CGAGCCAAACAGAATATCGCTCTTACGAGCCAGACAAAATATTGCTCATATGAGCCA
1 GCTC-TTACGAGCCAGACAGAATATCGCTCATACGAGCCAGACAAAATATTGCTCATATGAGCCA
* *
10158499 AATAGAATATT
65 GACAGAATATT
* * * * * * *
10158510 GCTCTTACGAGCCAGACAAAATTTCGCTCATGCAAGCCAGACAGAATATTGCTCATGTGAGCTAG
1 GCTCTTACGAGCCAGACAGAATATCGCTCATACGAGCCAGACAAAATATTGCTCATATGAGCCAG
*
10158575 ACAGACATA-C
66 ACAGA-ATATT
*
10158585 GCTCTTAAGAGC
1 GCTCTTACGAGC
10158597 TTGAATCACA
Statistics
Matches: 136, Mismatches: 23, Indels: 7
0.82 0.14 0.04
Matches are distributed among these distances:
74 2 0.01
75 122 0.90
76 11 0.08
77 1 0.01
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.22
Consensus pattern (75 bp):
GCTCTTACGAGCCAGACAGAATATCGCTCATACGAGCCAGACAAAATATTGCTCATATGAGCCAG
ACAGAATATT
Found at i:10158577 original size:50 final size:50
Alignment explanation
Indices: 10158359--10158563 Score: 241
Period size: 50 Copynumber: 4.1 Consensus size: 50
10158349 CCAAAATTTA
* * * * * * *
10158359 GCTCTAACGAGCCCAGACAGAATATCGCTCATACGAGTCAGACAAAATATC
1 GCTCTTACGAG-CCAGACAAAATATTGCTCATACGAGCCAAACAGAATATT
* * * *
10158410 GCTTTTACGAGCCAGACAGAATATTGCTCATTCGAGCCAAACAGAATATC
1 GCTCTTACGAGCCAGACAAAATATTGCTCATACGAGCCAAACAGAATATT
* *
10158460 GCTCTTACGAGCCAGACAAAATATTGCTCATATGAGCCAAATAGAATATT
1 GCTCTTACGAGCCAGACAAAATATTGCTCATACGAGCCAAACAGAATATT
* * *
10158510 GCTCTTACGAGCCAGACAAAAT-TTCGCTCATGCAAGCCAGACAGAATATT
1 GCTCTTACGAGCCAGACAAAATATT-GCTCATACGAGCCAAACAGAATATT
10158560 GCTC
1 GCTC
10158564 ATGTGAGCTA
Statistics
Matches: 135, Mismatches: 18, Indels: 3
0.87 0.12 0.02
Matches are distributed among these distances:
49 2 0.01
50 124 0.92
51 9 0.07
ACGTcount: A:0.35, C:0.25, G:0.18, T:0.22
Consensus pattern (50 bp):
GCTCTTACGAGCCAGACAAAATATTGCTCATACGAGCCAAACAGAATATT
Found at i:10168413 original size:16 final size:16
Alignment explanation
Indices: 10168392--10168427 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
10168382 AATCCAGGTC
*
10168392 ACACTTGAGACGATGA
1 ACACTTAAGACGATGA
*
10168408 ACACTTAAGATGATGA
1 ACACTTAAGACGATGA
10168424 ACAC
1 ACAC
10168428 CCTAACCATC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.19
Consensus pattern (16 bp):
ACACTTAAGACGATGA
Found at i:10178051 original size:29 final size:28
Alignment explanation
Indices: 10177987--10178054 Score: 73
Period size: 29 Copynumber: 2.4 Consensus size: 28
10177977 TTTAATAGTC
* **
10177987 TATATTTTTATAATTTTAAAAGATTAAA
1 TATAATTTTATAATTTTAAAAGACAAAA
* *
10178015 TCAAAATTTTATAATTTTAAGGAGACAAAA
1 T-ATAATTTTATAATTTTAA-AAGACAAAA
10178045 TATAATTTTA
1 TATAATTTTA
10178055 CCTTTACTAA
Statistics
Matches: 32, Mismatches: 6, Indels: 3
0.78 0.15 0.07
Matches are distributed among these distances:
28 1 0.03
29 24 0.75
30 7 0.22
ACGTcount: A:0.47, C:0.03, G:0.06, T:0.44
Consensus pattern (28 bp):
TATAATTTTATAATTTTAAAAGACAAAA
Found at i:10178590 original size:32 final size:32
Alignment explanation
Indices: 10178552--10178612 Score: 88
Period size: 32 Copynumber: 1.9 Consensus size: 32
10178542 TTGGAACATT
*
10178552 ATAAATTTAT-AACTTGAATTTAATAACTCGTG
1 ATAAATTAATCAA-TTGAATTTAATAACTCGTG
*
10178584 ATAAATTAATCAATTTAATTTAATAACTC
1 ATAAATTAATCAATTGAATTTAATAACTC
10178613 ATATTGATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
32 24 0.92
33 2 0.08
ACGTcount: A:0.44, C:0.10, G:0.05, T:0.41
Consensus pattern (32 bp):
ATAAATTAATCAATTGAATTTAATAACTCGTG
Found at i:10186980 original size:3 final size:3
Alignment explanation
Indices: 10186972--10187010 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
10186962 CAAGAAAATT
10186972 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
10187011 AGTTTAATGA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:10187301 original size:24 final size:28
Alignment explanation
Indices: 10187274--10187327 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 28
10187264 AAATTAAGAG
10187274 TTATTTT-TTA-ATTT-A-ATGTATTAT
1 TTATTTTATTATATTTCACATGTATTAT
*
10187298 TTATTTTATTATTTTTCACATGTATTAT
1 TTATTTTATTATATTTCACATGTATTAT
10187326 TT
1 TT
10187328 TATTGGATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
24 7 0.28
25 3 0.12
26 3 0.12
27 1 0.04
28 11 0.44
ACGTcount: A:0.26, C:0.04, G:0.04, T:0.67
Consensus pattern (28 bp):
TTATTTTATTATATTTCACATGTATTAT
Found at i:10187557 original size:3 final size:3
Alignment explanation
Indices: 10187549--10187574 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
10187539 TCGTTAAGCC
10187549 TAA TAA TAA TAA TAA TAA TAA TAA TA
1 TAA TAA TAA TAA TAA TAA TAA TAA TA
10187575 GAATTATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:10188224 original size:25 final size:24
Alignment explanation
Indices: 10188182--10188233 Score: 61
Period size: 25 Copynumber: 2.1 Consensus size: 24
10188172 TGCTAATATC
*
10188182 ATATAAATCATTACATAAGTATTAA
1 ATATAAATCATTACATAA-TAGTAA
*
10188207 ATATAAATTAGTTA-ATAATAGTAA
1 ATATAAATCA-TTACATAATAGTAA
10188231 ATA
1 ATA
10188234 AATAACAATA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
24 8 0.33
25 13 0.54
26 3 0.12
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.37
Consensus pattern (24 bp):
ATATAAATCATTACATAATAGTAA
Found at i:10189687 original size:3 final size:3
Alignment explanation
Indices: 10189681--10189715 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
10189671 TTTTATTTAT
10189681 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
10189716 TTATATTTTA
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
ATA
Found at i:10196869 original size:3 final size:3
Alignment explanation
Indices: 10196863--10196903 Score: 75
Period size: 3 Copynumber: 14.0 Consensus size: 3
10196853 TTTTATTTAT
10196863 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA A-A ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
10196904 TTATATTTTA
Statistics
Matches: 37, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 2 0.05
3 35 0.95
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:10214506 original size:16 final size:16
Alignment explanation
Indices: 10214485--10214520 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
10214475 TAGAGTGGAA
10214485 AAAATTGAAAAGATAG
1 AAAATTGAAAAGATAG
* *
10214501 AAAATTGAAGAGGTAG
1 AAAATTGAAAAGATAG
10214517 AAAA
1 AAAA
10214521 ATAGAAAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.61, C:0.00, G:0.22, T:0.17
Consensus pattern (16 bp):
AAAATTGAAAAGATAG
Found at i:10223424 original size:24 final size:23
Alignment explanation
Indices: 10223366--10223426 Score: 68
Period size: 23 Copynumber: 2.6 Consensus size: 23
10223356 CAAATTCATA
**
10223366 TTTTTCTATTTCTTTTAGATTGC
1 TTTTTCTATTGATTTTAGATTGC
*
10223389 TTTTTCTATTGATTTTGGATTGC
1 TTTTTCTATTGATTTTAGATTGC
* *
10223412 TCTTTTTTTTTGATT
1 T-TTTTCTATTGATT
10223427 GAAAATTATC
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
23 21 0.66
24 11 0.34
ACGTcount: A:0.11, C:0.10, G:0.11, T:0.67
Consensus pattern (23 bp):
TTTTTCTATTGATTTTAGATTGC
Found at i:10224214 original size:971 final size:961
Alignment explanation
Indices: 10222431--10225441 Score: 2747
Period size: 971 Copynumber: 3.1 Consensus size: 961
10222421 AACTTCTTTT
* * * *
10222431 TCTTTTTTTTTTATTGAAAAATATCTGATTTTACAGGTGAAGAATATA-TTTCTTTGTCTTATTA
1 TCTTTTTTTTTGATTGAAAATTATCTGATTTTGCAAGTGAAGAATATATTTTCTTTGTCTTATTA
* * * * *
10222495 TATTTTTGTTGTTTTTTTTTTAAA-AGAGTTGGATTTTTTTAATTTTAACGTAACGGAACAATAA
66 TATTTCTGTTG-ATTTTTTTGAAAGA-AGTTGGA-TTTTTTAATTTTACCGTAACGAAACAATAA
* * * * * * * * ** * * * *
10222559 CGAGAATAGCGAACCATTAATGCCACAATTGGTCGTTACCCATTAAATTGC-AGTCACGATCCAC
128 GGACAATAGTGACCCGTTATTGTCGCAATTGACCGTTACCCATAAAATTACGA-CCGCGATCCAC
* * * * ** * * * * *
10222623 CACTATTGTTGTGATTCCGCTTCACATC-GTAAATTGAGGGAGTAGCAATTT-G--CTACTACCG
192 CACTATTGGTGTGATTTCGCTTCACACCACTATTTTCA-GCAGTAACGATTTAGAACGAC-ACCG
* * ** * *
10222684 CTA----TATA-A-CGACCGCTATTCCGCTAACCAACTGCTGTTTAAATCCTTGACCCATTATTA
255 CTACTGCTATATAGCGACCACTATTCCGCTACCCAACCACTATTTAAATCTTTGACCCATTATTA
* * * ** ** * *
10222743 -CTCAATCACCCAATATCAAGAGGCCAAAATTGAAAACTGAAAAAATAAAAAATAATCCATAATT
320 TCT-AGTCACCCAAAATCAAGAGACCAAAATCCAAAACCCAAAAAATCAAACATAATCCATAATT
* * *
10222807 TATTTTTAAAAAAAATAAAAATAAAAGCCCACCATAACCCATTATTACCCGATCACAAAAAACCC
384 TA-TTTT-----AAA-AAAAA-ACAA-CCCACTATAA-CCATTATTACCCGATCAC------CCA
* * *
10222872 AAAAATTAAAAATTAAAACAAAATGTTCCCCAAATCCCTCAACCCCTTCTTCTTCTTTAATTGTA
433 AAAAATT-AAAATTAAAAAAAAAT-TTCCCCAAATCCCCCAACCCCTTCTTCTTC-TT-ATCGTA
* ** * *
10222937 AGGTAGAAAGCCAAAAACAAAAGAGGAAAAAAAATTAAGG-TTTAGGTTTTCTATGCTTTTCTTT
494 AGGTAGAGATACAGAAA-AAAA-AGG-AAAAAAATTAAGGTTTTAGGTTTTCTTTGCTTTTCTTT
** *
10223001 -TGAAGATCCATCCCTT-TTTCTTCATTTTTTTCAATTTTTTTAAACTTTG-TTAGACTATCATT
556 GT-AAGATCTGTCCCTTCTTTCTTCA-TTTTTTCAATTTCTTTAAACTTTGCTTAGACTATCATT
* * * * * *
10223063 GATTCCTA-CTATAATACCTAAAATATAAAGATGATTTGTAAAGATTTTGTCAAAAAATTTTTAT
619 GATTTCTATC-AAAATA-CTAAAATATAAAGATAATTTGCAAAGATTTTGTAAAAAAATTTTCAT
* * * * * *
10223127 CAATATTTGCA-AGTTACAACAAAAAAAAAAAAACAAGAATCAAAACAAAAAAAATTCG--TACT
682 CAATCTTTGCATA-TTACAAC----AAAAAGAAGCAAGAATCAAGACAAAAAAATTTAGTCTACT
* * * *
10223189 TGAAAATTATGAATTTCTAAAAATGTAAGTAAGATTTTGTT-TAAATATTTTTGTGATTGTGTTG
742 TGAAAATTATGAATTTCTGAAAGTGTAAGTGAGATTTTGTTAT-AGTATTTTTGTGATTGTGTTG
* *
10223253 TGATTTTGTTTGATTTGGAGTTTGGACAGTGAAATTTAAGAGTGAAAGTTTAGAATTTGGACTGC
806 TGATTTTGTTTGATTTGGAGTTTGGATAGTGAAATTTAAGAGTGAAAATTTAGAATTTGG-CTGC
* *
10223318 TTTTTTTTGTTTTTTGAACAAATTTCTTGTACCGATAACAAATTCATATTTTTCTATTTCTTTTA
870 TTTTTTCTATTTTTTGAACAAATTTCTTGTACCGATAACAAATTCATATTTTT-TA-TTCTTTTA
10223383 GATTGCTTTTTCTATTGATTTTGGATTGC
933 GATTGCTTTTTCTATTGATTTTGGATTGC
* * *
10223412 TCTTTTTTTTTGATTGAAAATTATCTGATTTTGCAAGTGAAGAATATATTCTCTTTATCTTGTTA
1 TCTTTTTTTTTGATTGAAAATTATCTGATTTTGCAAGTGAAGAATATATTTTCTTTGTCTTATTA
* * *
10223477 TATTTCTGTTGATTTTTTTTAAAGAATTTGGATTTTTTTATTATTTTTACCGTAACGGAACAATA
66 TATTTCTGTTGATTTTTTTGAAAGAAGTTGGA-TTTTTTA--A-TTTTACCGTAACGAAACAATA
** * * * * * * * *
10223542 AGGGGAATAGTGACCCGTTATTGTTGTAATTTG-TCGTTACCCGTTAAATTGCGACCGTGATCTA
127 AGGACAATAGTGACCCGTTATTGTCGCAA-TTGACCGTTACCCATAAAATTACGACCGCGATCCA
* * * * ***
10223606 TCGCTATTGGTGTGATTTCGCTTCACACCATTATTTTCAGCAGTAACGATTTCA-AACGGCGTTG
191 CCACTATTGGTGTGATTTCGCTTCACACCACTATTTTCAGCAGTAACGATTT-AGAACGACACCG
*** *
10223670 CTACTGCTATATAGCGACCACTATTCCGCTACTTGATCACTATTTAAATCTTTGACCCATTATTA
255 CTACTGCTATATAGCGACCACTATTCCGCTACCCAACCACTATTTAAATCTTTGACCCATTATTA
*
10223735 TCTAGTCACCCAAAATCAAGAGACCAAAATCCAAAACCCACAAAATCAAACATAATCCATAATTT
320 TCTAGTCACCCAAAATCAAGAGACCAAAATCCAAAACCCAAAAAATCAAACATAATCCATAATTT
10223800 ATTTTAAAAAAGACAACAACCCACTATAACCATTATTACCCGATCACCCAAAAAATTAAAATTAA
385 ATTTTAAAAAA-A-AACAACCCACTATAACCATTATTACCCGATCACCCAAAAAATTAAAATTAA
* *
10223865 AAAAAAATTTCCCCAAATCCCCCAACCCCTTCTTCTTC-TATCGTGAGGTAGAGATTCAGAAAAA
448 AAAAAAATTTCCCCAAATCCCCCAACCCCTTCTTCTTCTTATCGTAAGGTAGAGATACAGAAAAA
* *
10223929 AAAGGAAAAAAATTAAGGTTTTAGGTTTTCTTTGTTTTTCTTTGTAAGATATGTCCCTTCTTTCT
513 AAAGGAAAAAAATTAAGGTTTTAGGTTTTCTTTGCTTTTCTTTGTAAGATCTGTCCCTTCTTTCT
* * * * *
10223994 CCATTTTTTCAATTTCTTTAGACTTTGCTTAGATTACCGTTGATTTCTATCAAAATACATGAAAA
578 TCATTTTTTCAATTTCTTTAAACTTTGCTTAGACTATCATTGATTTCTATCAAAATAC-T-AAAA
* *
10224059 TAT-AA-AT-ATTTGCAAAGATTTTGT-TAAAAATTTCTCATCAATCTTTACATATTACAACAAA
641 TATAAAGATAATTTGCAAAGATTTTGTAAAAAAATTT-TCATCAATCTTTGCATATTACAACAAA
* * *
10224120 AAGAAGTAAGAATGAAGACAAAAAAATTTAGGTACTTACTTAAAAATTATGAATTTCTGAAAGTG
705 AAGAAGCAAGAATCAAGACAAAAAAATTTA-GT-C-TACTTGAAAATTATGAATTTCTGAAAGTG
* *
10224185 CAAGTGAGATTTTGCTTATAGT-TTTTTGTGATTGTGTTGTGATTTTGTTTAGTTTTGGAGTTTG
767 TAAGTGAGATTTTG-TTATAGTATTTTTGTGATTGTGTTGTGATTTTGTTT-GATTTGGAGTTTG
* * * * *
10224249 AATAGTGAAATTTGAGAGTGAAAATTTAGAGTTTGGGTTGC-TTTTTCTATTTTTTGAATAAATT
830 GATAGTGAAATTTAAGAGTGAAAATTTAGAATTT-GGCTGCTTTTTTCTATTTTTTGAACAAATT
* * * *
10224313 TCTTGTACTGATAACCAATTCATA----TTA--CTTTTGGATTGTTTTTTTCTATTGATTTTGGA
894 TCTTGTACCGATAACAAATTCATATTTTTTATTCTTTTAGATTG-CTTTTTCTATTGATTTTGGA
*
10224372 CTGC
958 TTGC
* * *
10224376 TCTTTTTTTATTATGATTGAAAATTATCTAATTTTGTAGGTGAAGAATATATTTTCTTTGT-TTA
1 TC-TTTTTT-TT-TGATTGAAAATTATCTGATTTTGCAAGTGAAGAATATATTTTCTTTGTCTTA
* *
10224440 TTATATTTCTGTTG-TTTTTTTGAAAGGAGTTGGATTTTTTAATTTTACTGTAACGAAACAATAA
63 TTATATTTCTGTTGATTTTTTTGAAAGAAGTTGGATTTTTTAATTTTACCGTAACGAAACAATAA
* * * * * *
10224504 TGACAATATTGACCTGTTATTGTCGCAATTGACCGTTACTCATAAAATTACGGCTGCGATCCACC
128 GGACAATAGTGACCCGTTATTGTCGCAATTGACCGTTACCCATAAAATTACGACCGCGATCCACC
* * ** * * *
10224569 ACTATTGGTGTGATTTTGCTTCACACCGCTATTTTTTGTAGTAGCGGTTTAGAACGACACCGCTA
193 ACTATTGGTGTGATTTCGCTTCACACCACTATTTTCAGCAGTAACGATTTAGAACGACACCGCTA
* * *
10224634 CTGCTATATAGCGACCACTATTTCGCTACCCAACCGCTATTTAAATCTTTGACCCATTATTATCC
258 CTGCTATATAGCGACCACTATTCCGCTACCCAACCACTATTTAAATCTTTGACCCATTATTATCT
** *
10224699 AGTCTTCTAAAATCAAGAGACCAAAATCCAAAACCCAAAAAATCAAACATAATCCATAATTTATT
323 AGTCACCCAAAATCAAGAGACCAAAATCCAAAACCCAAAAAATCAAACATAATCCATAATTTATT
* *
10224764 TT--AAAAAAACAACCCA-TCATAACCAATTATTACCCAATCACCCAAAACCCAAAAAAATAAAA
388 TTAAAAAAAAACAACCCACT-ATAACC-ATTATTACCCGAT----C---ACCC-AAAAAATTAAA
* * * * * **
10224826 ATTAAAACAAAAAGTTCTCTAAATCCTCCCAACCCCCTTCTTCCTTTTCTTTTTCTTCTATTGT-
443 ATTAAAA-AAAAATTTCCCCAAATCC-CCCAA-CCCCTTCTT-C--TTC-TTATC--GTAAGGTA
* * *** * * *
10224890 GAGGTAGAGAGTCAAAA--AAAAAAATTATGATTTTAAGGTTTT-TTTGCTTTTCTTTGTTAGAT
499 GAGATACAGAAAAAAAAGGAAAAAAATTAAGGTTTT-AGGTTTTCTTTGCTTTTCTTTGTAAGAT
* * *
10224952 CTGCCCCTTCTTTTTTCATTTTTT-ATTTAGTTTCTTTAAACTTTGCTTAGACTATTATTGATTT
563 CTGTCCCTTCTTTCTTCATTTTTTCA---A-TTTCTTTAAACTTTGCTTAGACTATCATTGATTT
* * **
10225016 CTATTAAAATATCTAAAAATATAAAGATAATTTACAAAGATTTTGTAAAAAAAAATTCATCAATC
624 CTATCAAAATA-CT-AAAATATAAAGATAATTTGCAAAGATTTTGTAAAAAAATTTTCATCAATC
* * * *
10225081 TTTGCATGTTACAATAAAAAGAAGCAAAAATCAAGATAAAAAAATTTCAG---A-TTGAAAATTA
687 TTTGCATATTACAACAAAAAGAAGCAAGAATCAAGACAAAAAAATTT-AGTCTACTTGAAAATTA
* * * *
10225142 TGAACTTCTGAAAGTGTAAGTGATATTTT-TT-TAGATGTTTTTGTGATTGTGTTGTGATTTTAT
751 TGAATTTCTGAAAGTGTAAGTGAGATTTTGTTATAG-TATTTTTGTGATTGTGTTGTGATTTTGT
* * * *
10225205 TTGATTTGGAGTTTAGATAGTGAAATCTAATAGTGAAACTTTA-AAGTTTAGGCT-CTTTTTTCT
815 TTGATTTGGAGTTTGGATAGTGAAATTTAAGAGTGAAAATTTAGAA-TTT-GGCTGCTTTTTTCT
* * * * * ** * *
10225268 AATTTTTGAACAATTTTTTTATACCAATAACTGATTCATATTTTTTTATTGCTTTTAAACTGCTT
878 ATTTTTTGAACAAATTTCTTGTACCGATAACAAATTCATA-TTTTTTATT-CTTTTAGATTGCTT
* *
10225333 TTATCTGTTG---TTAGATTGC
941 TT-TCTATTGATTTTGGATTGC
* * * * * *
10225352 TTTTTCTTTTTTTATTTATTGAAAATTATTTGATTTTACATGTGAAAAATATATTTTCATTGTCT
1 ----TCTTTTTTT-TTGATTGAAAATTATCTGATTTTGCAAGTGAAGAATATATTTTCTTTGTCT
**
10225417 TATTATATTTAAGTTGATTTTTTTG
61 TATTATATTTCTGTTGATTTTTTTG
10225442 GACTTGAATT
Statistics
Matches: 1679, Mismatches: 255, Indels: 193
0.79 0.12 0.09
Matches are distributed among these distances:
956 1 0.00
957 15 0.01
958 13 0.01
959 4 0.00
960 4 0.00
961 235 0.14
962 2 0.00
963 10 0.01
964 31 0.02
965 27 0.02
966 63 0.04
967 60 0.04
968 5 0.00
969 17 0.01
970 54 0.03
971 251 0.15
972 116 0.07
973 116 0.07
974 12 0.01
975 12 0.01
976 89 0.05
977 18 0.01
978 56 0.03
979 102 0.06
980 17 0.01
981 69 0.04
982 24 0.01
983 1 0.00
984 115 0.07
985 21 0.01
986 11 0.01
987 3 0.00
990 4 0.00
991 5 0.00
992 94 0.06
993 2 0.00
ACGTcount: A:0.33, C:0.15, G:0.12, T:0.39
Consensus pattern (961 bp):
TCTTTTTTTTTGATTGAAAATTATCTGATTTTGCAAGTGAAGAATATATTTTCTTTGTCTTATTA
TATTTCTGTTGATTTTTTTGAAAGAAGTTGGATTTTTTAATTTTACCGTAACGAAACAATAAGGA
CAATAGTGACCCGTTATTGTCGCAATTGACCGTTACCCATAAAATTACGACCGCGATCCACCACT
ATTGGTGTGATTTCGCTTCACACCACTATTTTCAGCAGTAACGATTTAGAACGACACCGCTACTG
CTATATAGCGACCACTATTCCGCTACCCAACCACTATTTAAATCTTTGACCCATTATTATCTAGT
CACCCAAAATCAAGAGACCAAAATCCAAAACCCAAAAAATCAAACATAATCCATAATTTATTTTA
AAAAAAAACAACCCACTATAACCATTATTACCCGATCACCCAAAAAATTAAAATTAAAAAAAAAT
TTCCCCAAATCCCCCAACCCCTTCTTCTTCTTATCGTAAGGTAGAGATACAGAAAAAAAAGGAAA
AAAATTAAGGTTTTAGGTTTTCTTTGCTTTTCTTTGTAAGATCTGTCCCTTCTTTCTTCATTTTT
TCAATTTCTTTAAACTTTGCTTAGACTATCATTGATTTCTATCAAAATACTAAAATATAAAGATA
ATTTGCAAAGATTTTGTAAAAAAATTTTCATCAATCTTTGCATATTACAACAAAAAGAAGCAAGA
ATCAAGACAAAAAAATTTAGTCTACTTGAAAATTATGAATTTCTGAAAGTGTAAGTGAGATTTTG
TTATAGTATTTTTGTGATTGTGTTGTGATTTTGTTTGATTTGGAGTTTGGATAGTGAAATTTAAG
AGTGAAAATTTAGAATTTGGCTGCTTTTTTCTATTTTTTGAACAAATTTCTTGTACCGATAACAA
ATTCATATTTTTTATTCTTTTAGATTGCTTTTTCTATTGATTTTGGATTGC
Found at i:10224750 original size:961 final size:962
Alignment explanation
Indices: 10218128--10225309 Score: 3545
Period size: 961 Copynumber: 7.5 Consensus size: 962
10218118 GTTCCTGAAA
* * * * * *
10218128 TCCCCAAATCCACACAACCCCTTCTTCTTCTTCTATTGTGAGGCAAAGAGCTA-A-AAACAAAGA
1 TCCCCAAATCC-CCCAACCCCTTCTTCTTC-T-TATCGTAAGG--TAGAGATACAGAAA-AAAAA
* * * *
10218191 GGAAAAAAATT-AGGGTTTAGGTTTTCTTTGCTTTTCTTTGTAAGACCTGTCCTTTCTTTCTCCA
60 GGAAAAAAATTAAGGTTTTAGGTTTTCTTTGCTTTTCTTTGTAAGATCTGTCCCTTCTTTCTTCA
* * * *
10218255 TTTTTTTTCAATTTTTTTAAACTTTGCTTAGACTACCATTGATTCCTACCAAAATACTCGAAAAT
125 --TTTTTTCAATTTCTTTAAACTTTGCTTAGACTATCATTGATTTCTATCAAAATACT--AAAAT
* * * * * *
10218320 ATAAAAATGATTTGTAAAGATTTTGT-CAAAATTTTCTCATCAATCTTTGCATTTTACAACAAAA
186 ATAAAGATAATTTGCAAAGATTTTGTAAAAAAATTT-TCATCAATCTTTGCATATTACAAC-AAA
* * * * *
10218384 AAGAAGCTAGAATCAAGACAAAAAAATTCAAGTACTTATTTGAAAATTATGAATTTCTAAAACTG
249 AAGAAGCAAGAATCAAGACAAAAAAATT-TAGT-C-TACTTGAAAATTATGAATTTCTGAAAGTG
* * * *
10218449 CAAGTGAGATTTTATT-TAG-ACTTTTTTGTGATTGTGTTGTGATTTTGTTTGGA-TTGAAATTT
311 TAAGTGAGATTTTGTTATAGTA--TTTTTGTGATTGTGTTGTGATTTTGTTT-GATTTGGAGTTT
* * * * * * * * *
10218511 GGACAGTGAAATCTGAGAGTGAAAGTTTAGAGTTCGGACTAC-TTTTTCCATTTTTTGAACAAAT
373 GAATAGTGAAATTTAAGAGTGAAAATTTAGAGTTTGGGCTGCTTTTTTCTATTTTTTGAACAAAT
* * ** * * *
10218575 TTCTTATACTGATAACCGATTCATACTTTTCTATTGCTTTTGGACTACATTTTTTCTATTGATTT
438 TTCTTGTACCGATAACAAATTCATA---TTCTA-T-CTTTTAGATTGC--TTTTTCTATTGATTT
* * * * * * * *
10218640 TGAATTGCTTTTTCTTTTTTTAATTGAAAATTAACTACTTTTGC-AGATGAAGAATATCTTCCCT
496 TGGACTGC-TCTT-TTTTTTTGATTGAAAATTATCTAATTTTGCAAG-TGAAGAATATATTCTCT
* * * * * * * **
10218704 TTGTATTATTATATTTCTATAGATTTTTTTAAAAG-AGTTGGATTTTTTTAAAATTTTAATGTAA
558 TTATCTTATTATATTTCTGTTGATTTTTTTGAAAGAAGTTGGATTTTTTTATATTTTTACCGTAA
* * * * * * * * * *
10218768 CGGAACAATAACGG-GAATAG-CAGGCCGTTATTATCGCAATTAGTCGTTACTCGTTAAATTACG
623 CGAAACAATAA-GGACAATAGTGA-CCCGTTATTGTCGCAATTTGCCGTTACCCATAAAATTACG
* * * * * * * * * * * * * * **
10218831 ATCACGATCCACCGCTATTGTTATGAATCCGCTTCACATCGCAATTTTCGGCTGTAGCAATTTTG
686 ACCGCGATCCACCACTATTGGTGTGATTTCGCTTCACACCACTATTTTCAGCAGTAACGATTTCA
* * * ** * * * * * ** * * * *
10218896 GACGGCACCGTTACCACTATTTAGCAATCGCGATTTTGCTACCCGACTGCTATTTAAAT-TCCTA
751 AACGACACCGCTACTGCTATATAGCGACCACTATTCCGCTACCCAACCGCTATTTAAATCT-TTG
* * * * * *
10218960 ACCTATTAATGTCCAATCACCCAAAATCAAGA-AGTCAAAA-CTCAAAA-CCACAAAATCAAAC-
815 ACCCATTATTATCCAGTCACCCAAAATCAAGAGA-CCAAAATC-CAAAACCCAAAAAATCAAACA
* *
10219021 -AATCCATAATTTATTTTCAAAAAACAACAACCCAC-----CCATTATTATCCGATCACCCAAAA
878 TAATCCATAATTTATTTT-AAAAAAAAACAACCCACTATAACCATTATTACCCGATCACCC---A
*
10219080 CCCAAAAAATAAAAGTTAAAACAAAAAGTT
939 ---AAAAATTAAAA-TTAAAA-AAAAA-TT
* * * * ** *
10219110 T-CCCAAATCACCCCAACCATCTTCTTTTTCTTTAATCGTGAGGCAGAGAGCCA-AAAACAAGAG
1 TCCCCAAATC-CCCCAACC-CCTTCTTCTTC-TT-ATCGTAAGGTAGAGATACAGAAAA-AA-AA
* * ** * *
10219173 GGAAAAAAATT-AGGATTTAGGTTTTCTTTGCTTTTCTTTGCAAGATCCATCCTTTCTTTCTCCA
60 GGAAAAAAATTAAGGTTTTAGGTTTTCTTTGCTTTTCTTTGTAAGATCTGTCCCTTCTTTCTTCA
* ** * * *
10219237 TTTTTTTCCAATTTCTTTAAACTTTACTTAGGTTACCATTGATTCCTACCAAAATACTAGAAAAT
125 -TTTTTT-CAATTTCTTTAAACTTTGCTTAGACTATCATTGATTTCTATCAAAATACT--AAAAT
* * * * *
10219302 GTAAAGATGA--TGCAAAGATTTTCT-CAAAAATTTCTCATCAATCTTTGCATCTTACAACAAAA
186 ATAAAGATAATTTGCAAAGATTTTGTAAAAAAATTT-TCATCAATCTTTGCATATTACAACAAAA
*
10219364 AGAAGCAAGAATCAAGACAAAAAAAATTACGTACTTACTTGAAAATTATGAATTTCT-ACAAGTG
250 AGAAGCAAGAATCAAGACAAAAAAATTTA-GT-C-TACTTGAAAATTATGAATTTCTGA-AAGTG
* * *
10219428 CAAGTGATATTTTGTT-TAGAAATTTTTGTGA-----TTGTG--TTTG--T--TTTGGAGTTT-A
311 TAAGTGAGATTTTGTTATAG-TATTTTTGTGATTGTGTTGTGATTTTGTTTGATTTGGAGTTTGA
* * * * * * * *
10219480 GACAGTGAAATCTAGGAGTGAAAGTTTATAGTTT--G--G--ATTTT-T-TTTTTTGAATAATTT
375 -ATAGTGAAATTTAAGAGTGAAAATTTAGAGTTTGGGCTGCTTTTTTCTATTTTTTGAACAAATT
*** * * * *
10219537 TCTTGTAATTATAATC-GATTCATA-T-T-TCTTTTGGATTGTTTTTTCTATTGATTTTGGATTG
439 TCTTGTACCGATAA-CAAATTCATATTCTATCTTTTAGATTGCTTTTTCTATTGATTTTGGACTG
* * * * * * * *
10219598 CTTTATCTTTTTTTGATTAAAAATTATCTGATTTTGCAAGTAAAGCATATACTCCCTTTGTCTTA
503 CTCT-T-TTTTTTTGATTGAAAATTATCTAATTTTGCAAGTGAAGAATATATTCTCTTTATCTTA
* * *
10219663 TTATA-------T-A-TCTCTT----G-A--T---TTTTTTTA-A-TTTTAACGTAAC-AGAACA
566 TTATATTTCTGTTGATTTTTTTGAAAGAAGTTGGATTTTTTTATATTTTTACCGTAACGA-AACA
* * * * * * ** * * * * * *
10219706 ATAACGAGAATAGCGGCCCATTACTACCGCAATTGGTCGTTACCCATTAAATTGCGATCGAGATC
630 ATAAGGACAATAGTGACCCGTTATTGTCGCAATTTGCCGTTACCCATAAAATTACGACCGCGATC
* ** * * * * * * * * *
10219771 CATCGTTATTGTTGTGATTCCGCTTCACATCGCAATTTTC-GACAATAGCGATTTCGAACGACGC
695 CACCACTATTGGTGTGATTTCGCTTCACACCACTATTTTCAG-CAGTAACGATTTCAAACGACAC
* * * ** ** * ** * * * **
10219835 CACTACCGATATATAAAGGTCGCTATTCCAATACCCAATCGTTATTTAAATCTCTGACTTATTAT
759 CGCTACTGCTATATAGCGACCACTATTCCGCTACCCAACCGCTATTTAAATCTTTGACCCATTAT
* * * * * * * *
10219900 TATCTAATCACCCAAAATCAA-AGGCCAAACT-CAAAACCCATAAAATCAAACACAATTCACAAT
824 TATCCAGTCACCCAAAATCAAGAGACCAAAATCCAAAACCCAAAAAATCAAACATAATCCATAAT
* * *
10219963 TTATTTAAAAACAATAACAACAACAACAACAACCCATAACTCATTATTACAC-AGTCACCC-AAA
889 TTATTT-TAAA-AA-AA-AACAAC--C--C-A-CTATAAC-CATTATTACCCGA-TCACCCAAAA
*** *
10220026 ACCCAAAA--AAACAAACAAAGT
942 AATTAAAATTAAA-AAA-AAATT
* * * * * * **
10220047 TCCCTAAATCCCCCAACCATCTTATTCTTTTTTTATAGTGA-GTCAGAGAGCCA-AAAACAAAAG
1 TCCCCAAATCCCCCAACC-CCTTCTTC--TTCTTATCGTAAGGT-AGAGATACAGAAAA-AAAAG
* * * * * *
10220110 AAGAAATAAATT-AGAG-TTCAAG-----TTTACTTTTC----T-AGATC-CTCCCTTTTTTTCT
61 --GAAAAAAATTAAG-GTTTTAGGTTTTCTTTGCTTTTCTTTGTAAGATCTGTCCC-TTCTTTCT
* *
10220162 CCATTTTTTTTCAATTTCTTTAAACTTTGCCTA-AGCTA-CTATTGA-TTCTTATCAAAATACTC
122 TCA--TTTTTTCAATTTCTTTAAACTTTGCTTAGA-CTATC-ATTGATTTC-TATCAAAATACT-
* * * * *
10220224 AAAAATATAAAGATGATTTTCAAAGATTTTGT-CAAAAATTTCTAATCAATCTTTGCATCTTACA
181 -AAAATATAAAGATAATTTGCAAAGATTTTGTAAAAAAATTT-TCATCAATCTTTGCATATTACA
* *
10220288 ACAAAAAGAAGCAAGAATCAAGACAAAAAAAAATTCACATACTTACTTGAAAATTATGAATTTCT
244 ACAAAAAGAAGCAAGAATCAAGAC--AAAAAAATTTA-GT-C-TACTTGAAAATTATGAATTTCT
* * * * * *
10220353 AAAAGTGCAAGTGATATTTTGTT-TAGAAATTTTTGTGATTGTGTTGTGATTTTGTTTGTTTTGA
304 GAAAGTGTAAGTGAGATTTTGTTATAG-TATTTTTGTGATTGTGTTGTGATTTTGTTTGATTTGG
* * * * * *
10220417 AGTTTGGACAGTGAAATCTAAGAGT-AGAAGTTTACAGTTT-GGATGC-TTTTTCTATTTTTTGA
368 AGTTTGAATAGTGAAATTTAAGAGTGA-AAATTTAGAGTTTGGGCTGCTTTTTTCTATTTTTTGA
* * * * *
10220479 ACAAAATTCTTGTATCGATAATC-AATTCATATTATTCTATTTCTTTGGATTG-TTTTTCCTGTT
432 ACAAATTTCTTGTACCGATAA-CAAATTC--A-TATTCTATCT-TTTAGATTGCTTTTT-CTATT
* * * * * * *
10220542 GATTTTGGATTGCTTTTTCTTTTTTTAATTGAAAATAATCTGATTTTGCAAGTAAAGAATATACT
491 GATTTTGGACTGC-TCTT-TTTTTTTGATTGAAAATTATCTAATTTTGCAAGTGAAGAATATATT
* * * * * * *
10220607 CTCTTTGTCTTATTATATTTCTATTCATTTTTTT-AAAG-AGTT-GAATTTTTTAAAATTTTAAC
554 CTCTTTATCTTATTATATTTCTGTTGATTTTTTTGAAAGAAGTTGGATTTTTTTATATTTTTACC
* * ** * * * *
10220669 GTAACGGAACAATAACTG-CAATAACGGCCCGTTACTGTCGCAA-TTGATCGTTACCCATTAAAT
619 GTAACGAAACAATAA-GGACAATAGTGACCCGTTATTGTCGCAATTTG-CCGTTACCCATAAAAT
** ** * ** * * * * * *
10220732 TGTGGTCGAGATCCACCGTTATTGTTGTGA-TTC-CTTCTCACATCACAATTTT-TGACAATAGC
682 TACGACCGCGATCCACCACTATTGGTGTGATTTCGC-T-TCACACCACTATTTTCAG-CAGTAAC
** *** * ** * ** * * * * * *
10220794 GATTTTGAACGGTGCCACTACCACTATAAAATGGCCACTATTTCACTACCCGATCGTTATTTAAA
744 GATTTCAAACGACACCGCTACTGCTATATAGCGACCACTATTCCGCTACCCAACCGCTATTTAAA
* * * * * * * * * *
10220859 T-TCCTAACCCATTATTACCCAATCTCCTAAAATCAAGAGGCCAAACT-CAAAACCTACAAAATC
809 TCT-TTGACCCATTATTATCCAGTCACCCAAAATCAAGAGACCAAAATCCAAAACCCAAAAAATC
* *
10220922 AAACATAA-CTCATAATTTA-TTTAAAAACAACAACAAAAACCCA-TA-ATCTATTATTACCCGA
873 AAACATAATC-CATAATTTATTTTAAAAA-AA-AAC---AACCCACTATAACCATTATTACCCGA
* *
10220983 TCACCCAAAACCTAAAAAATAAAAATTAGAAAAAAAAGT
932 TCA--C----CC-AAAAAATTAAAATTA-AAAAAAAATT
* * * * * **
10221022 TCCCTAAATCCCTCCAACCCTCTTCTTTCTCTTTTATAGTGAGGCAGAGAGCCA-AAAATAAAAG
1 TCCCCAAATCCC-CCAACCC-CTTC-TTCT-TCTTATCGTAAGGTAGAGATACAGAAAA-AAAAG
* * *
10221086 AGAAAATAAATT-AGGGTTTAGGTTTT-TTTG-------TT-T--GATCCG--CATT-TTT-TTC
61 -GAAAA-AAATTAAGGTTTTAGGTTTTCTTTGCTTTTCTTTGTAAGATCTGTCCCTTCTTTCTT-
* * *
10221135 CATTTTTTTCCAATTTCTTTAAATTTTGCCTAGACTA-CTATTGAATAT-TA-CTAAAATACTCG
123 CA-TTTTTT-CAATTTCTTTAAACTTTGCTTAGACTATC-ATTG-ATTTCTATC-AAAATACT--
* * * * *
10221197 AAAATATAAAGATGATTTGCAAAGATTTTGT-AAAAAATTTCTAATCAGTTTTTGCATCTTACAA
181 AAAATATAAAGATAATTTGCAAAGATTTTGTAAAAAAATTT-TCATCAATCTTTGCATATTACAA
* * * *
10221261 AAAAAAGAAGCAAGAATCAAGA-AAAAAAATTTA--CGTACTTGGATATTATGAATTTCTAAAAG
245 CAAAAAGAAGCAAGAATCAAGACAAAAAAATTTAGTC-TACTTGAAAATTATGAATTTCTGAAAG
* * * * * * * *
10221323 TGCAAGTGAGAATTTGTT-TAGAGATTTTTTTTGATTGTGTTGTGAATTTGTTTGGTTTGAAATT
309 TGTAAGTGAGATTTTGTTATAG-TA-TTTTTGTGATTGTGTTGTGATTTTGTTTGATTTGGAGTT
* * * * * * *
10221387 TGGACAGTGAAATTTGAGAGTAAAAATTTAGAGTTTGGACTG--TTTTTCTGTTATTTGAACAAA
372 TGAATAGTGAAATTTAAGAGTGAAAATTTAGAGTTTGGGCTGCTTTTTTCTATTTTTTGAACAAA
* * * ** *
10221450 TATT-TT-TAACCGATAACCAATTCATA-T-T-T-TTCT--ATTG-ATTTTGGATTGCTTTT---
437 T-TTCTTGT-ACCGATAACAAATTCATATTCTATCTTTTAGATTGCTTTTTCTATTGATTTTGGA
* * * * *
10221503 -T-CT-TTCTTTTTTTAATTGAAAATTATCTAATTTTGCAAGTGAAGAACATATTCCCTTTGTTT
500 CTGCTCTT-TTTTTTTGATTGAAAATTATCTAATTTTGCAAGTGAAGAATATATTCTCTTTATCT
* * * * *
10221565 TATTATATTTCTGTTGATTTTTTT-AAAGGAGATAGATTTTTTTA-A-TTTTACCATAATGGAAA
564 TATTATATTTCTGTTGATTTTTTTGAAAGAAGTTGGATTTTTTTATATTTTTACCGTAA-CGAAA
* * * * * * * ** *** *
10221627 -AATAACAGA-AATAGTGGCCTGTTATTGTCGCAATTTGTCGTTACCCGTTATATTGTGGTTGTG
628 CAATAA-GGACAATAGTGACCCGTTATTGTCGCAATTTGCCGTTACCCATAAAATTACGACCGCG
** * * ***** * * * **
10221690 ATCCACCGTTATTAGTGTGATTCCGCTTCACGGTGTTATTTT-TGATAGTAGCTG-TTTCAGTCG
692 ATCCACCACTATTGGTGTGATTTCGCTTCACACCACTATTTTCAG-CAGTAAC-GATTTCAAACG
* ** * * * * * * * * * * *
10221753 GCGTCGTTACCGCTATATAACGACTACTATTCCGTTATCCGATCGTTATTTAAAT-TCCT-AACC
755 ACACCGCTACTGCTATATAGCGACCACTATTCCGCTACCCAACCGCTATTTAAATCT-TTGACCC
* * * * * ** * *
10221816 TTATATTGTCCAATCACCAAAAATAAAGAGGTCAAAA-CTCAAAATCCACAAAATCAAACATAAT
819 AT-TATTATCCAGTCACCCAAAATCAAGAGACCAAAATC-CAAAACCCAAAAAATCAAACATAAT
* * *
10221880 CCATAATTTA-TTT----AAAAA-AACCCACCATAATCTATTACTACCCGATCACCCAAAGCTCA
882 CCATAATTTATTTTAAAAAAAAACAACCCACTATAA-CCATTATTACCCGATCACCC--A----A
* *
10221939 AACAATAAAAATTAAAACAAAAAGT
940 AA-AATTAAAATTAAAA-AAAAATT
** * * ** ** *
10221964 TCTTCAAATCCCCCTAACCCCTTTCTTCTTCTTCTGTCGTGAGACAGAGAGCCA-AAAGAAAGAG
1 TCCCCAAATCCCCC-AACCCC-TTCTTCTTC-T-TATCGTAAGGTAGAGATACAGAAA-AAA-AA
* * *** * * *
10222028 GGAAAAAAATTAGGGTTTTAGGTTTTCTTTGTTTTTC-TACCAA-A---AT-AC--C---C--GA
60 GGAAAAAAATTAAGGTTTTAGGTTTTCTTTGCTTTTCTTTGTAAGATCTGTCCCTTCTTTCTTCA
* * * * * * *
10222080 -------AA---ATATAAA----GATT--AC---CATTGATTCCTACCAAAATGCCCAAAAATAT
125 TTTTTTCAATTTCTTTAAACTTTGCTTAGACTATCATTGATTTCTATCAAAAT--ACTAAAATAT
* * * *
10222126 AAAGATTATTTGCAAAGATTTTGTCAAAAAATTCTCATCAATCTTTGCATGTTACAACAAAAAAG
188 AAAGATAATTTGCAAAGATTTTGTAAAAAAATTTTCATCAATCTTTGCATATTACAAC-AAAAAG
* * * *
10222191 AAGCAAAAATTAAGACAAAAAAAAAATTCAGGTACTTACTTGAAAATTATGAATTTCTTAAAGTG
252 AAGCAAGAATCAAGAC---AAAAAAATTTA-GT-C-TACTTGAAAATTATGAATTTCTGAAAGTG
* * * * * * * *
10222256 AAAGAGAGATTTTGTT-TAGAGATTTTTGTGATTGTATTGTGATTTTGTTTGGTTTGCAGTTCGG
311 TAAGTGAGATTTTGTTATAG-TATTTTTGTGATTGTGTTGTGATTTTGTTTGATTTGGAGTTTGA
** * * * ** *
10222320 GCAGTGAAATCTATGAGTGAAAGTTTAG-G---GGATTGCTTTTTTCTGTTTTTTGAACAAATTT
375 ATAGTGAAATTTAAGAGTGAAAATTTAGAGTTTGGGCTGCTTTTTTCTATTTTTTGAACAAATTT
* * * * ** *
10222381 TTTGTACCGATAATAGATTCATA-T-T-T-TTCT--ATTGC-TTTTGAACTT-CTTTT----T-C
440 CTTGTACCGATAACAAATTCATATTCTATCTTTTAGATTGCTTTTTCTA-TTGATTTTGGACTGC
* * * * *
10222433 T-TTTTTTTTT-ATTGAAAAATATCTGATTTTACAGGTGAAGAATATATT-TCTTTGTCTTATTA
504 TCTTTTTTTTTGATTGAAAATTATCTAATTTTGCAAGTGAAGAATATATTCTCTTTATCTTATTA
* * * * *
10222495 TATTTTTGTTGTTTTTTTTTTAAA-AGAGTTGGATTTTTTTA-A-TTTTAACGTAACGGAACAAT
569 TATTTCTGTTG-ATTTTTTTGAAAGA-AGTTGGATTTTTTTATATTTTTACCGTAACGAAACAAT
* * * * * * * * * * * * * *
10222557 AACGAGAATAGCGAACCATTAATGCCACAATTGGTCGTTACCCATTAAATTGC-AGTCACGATCC
632 AAGGACAATAGTGACCCGTTATTGTCGCAATTTGCCGTTACCCATAAAATTACGA-CCGCGATCC
* * * * ** * * * *
10222621 ACCACTATTGTTGTGATTCCGCTTCACATC-GTAAATTGAGGGAGTAGCAATTT-----G-CTA-
696 ACCACTATTGGTGTGATTTCGCTTCACACCACTATTTTCA-GCAGTAACGATTTCAAACGAC-AC
* * * * * * *
10222678 --CTACCGCTATATAACGACCGCTATTCCGCTAACCAACTGCTGTTTAAATCCTTGACCCATTAT
759 CGCTACTGCTATATAGCGACCACTATTCCGCTACCCAACCGCTATTTAAATCTTTGACCCATTAT
* * * ** ** * *
10222741 TA-CTCAATCACCCAATATCAAGAGGCCAAAATTGAAAACTGAAAAAATAAAAAATAATCCATAA
824 TATC-CAGTCACCCAAAATCAAGAGACCAAAATCCAAAACCCAAAAAATCAAACATAATCCATAA
* *
10222805 TTTATTTTTAAAAAAAATAAAAATAAAAGCCCACCATAACCCATTATTACCCGATCACAAAAAAC
888 TTTA-TTTT-----AAA-AAAAA-ACAA-CCCACTATAA-CCATTATTACCCGATCAC------C
* *
10222870 CCAAAAATTAAAAATTAAAACAAAATGT
937 CAAAAAATT-AAAATTAAAAAAAAAT-T
* * * ** *
10222898 TCCCCAAATCCCTCAACCCCTTCTTCTTCTTTAATTGTAAGGTAGAAAGCCAAAAACAAAAGAGG
1 TCCCCAAATCCCCCAACCCCTTCTTCTTC-TT-ATCGTAAGGTAGAGATACAGAAA-AAAA-AGG
* **
10222963 AAAAAAAATTAAGG-TTTAGGTTTTCTATGCTTTTCTTT-TGAAGATCCATCCCTT-TTTCTTCA
62 -AAAAAAATTAAGGTTTTAGGTTTTCTTTGCTTTTCTTTGT-AAGATCTGTCCCTTCTTTCTTCA
* * *
10223025 TTTTTTTCAATTTTTTTAAACTTTG-TTAGACTATCATTGATTCCTA-CTATAATACCTAAAATA
125 -TTTTTTCAATTTCTTTAAACTTTGCTTAGACTATCATTGATTTCTATC-AAAATA-CTAAAATA
* * * * *
10223088 TAAAGATGATTTGTAAAGATTTTGTCAAAAAATTTTTATCAATATTTGCA-AGTTACAACAAAAA
187 TAAAGATAATTTGCAAAGATTTTGTAAAAAAATTTTCATCAATCTTTGCATA-TTACAAC----A
* * * * * * *
10223152 AAAAAAAACAAGAATCAAAACAAAAAAAATTCG--TACTTGAAAATTATGAATTTCTAAAAATGT
247 AAAAGAAGCAAGAATCAAGACAAAAAAATTTAGTCTACTTGAAAATTATGAATTTCTGAAAGTGT
* * *
10223215 AAGTAAGATTTTGTT-TAAATATTTTTGTGATTGTGTTGTGATTTTGTTTGATTTGGAGTTTGGA
312 AAGTGAGATTTTGTTAT-AGTATTTTTGTGATTGTGTTGTGATTTTGTTTGATTTGGAGTTTGAA
* * * * * *
10223279 CAGTGAAATTTAAGAGTGAAAGTTTAGAATTTGGACTGCTTTTTTTTGTTTTTTGAACAAATTTC
376 TAGTGAAATTTAAGAGTGAAAATTTAGAGTTTGGGCTGCTTTTTTCTATTTTTTGAACAAATTTC
*
10223344 TTGTACCGATAACAAATTCATATTTTTCTATTTCTTTTAGATTGCTTTTTCTATTGATTTTGGAT
441 TTGTACCGATAACAAATTCATA---TTCTA--TCTTTTAGATTGCTTTTTCTATTGATTTTGGAC
* *
10223409 TGCTCTTTTTTTTTGATTGAAAATTATCTGATTTTGCAAGTGAAGAATATATTCTCTTTATCTTG
501 TGCTCTTTTTTTTTGATTGAAAATTATCTAATTTTGCAAGTGAAGAATATATTCTCTTTATCTTA
* * *
10223474 TTATATTTCTGTTGATTTTTTTTAAAGAATTTGGATTTTTTTATTATTTTTACCGTAACGGAACA
566 TTATATTTCTGTTGATTTTTTTGAAAGAAGTTGGATTTTTTTA-TATTTTTACCGTAACGAAACA
** * * * * * * *
10223539 ATAAGGGGAATAGTGACCCGTTATTGTTGTAATTTGTCGTTACCCGTTAAATTGCGACCGTGATC
630 ATAAGGACAATAGTGACCCGTTATTGTCGCAATTTGCCGTTACCCATAAAATTACGACCGCGATC
* * * * * ***
10223604 TATCGCTATTGGTGTGATTTCGCTTCACACCATTATTTTCAGCAGTAACGATTTCAAACGGCGTT
695 CACCACTATTGGTGTGATTTCGCTTCACACCACTATTTTCAGCAGTAACGATTTCAAACGACACC
*** * *
10223669 GCTACTGCTATATAGCGACCACTATTCCGCTACTTGATCACTATTTAAATCTTTGACCCATTATT
760 GCTACTGCTATATAGCGACCACTATTCCGCTACCCAACCGCTATTTAAATCTTTGACCCATTATT
* *
10223734 ATCTAGTCACCCAAAATCAAGAGACCAAAATCCAAAACCCACAAAATCAAACATAATCCATAATT
825 ATCCAGTCACCCAAAATCAAGAGACCAAAATCCAAAACCCAAAAAATCAAACATAATCCATAATT
10223799 TATTTTAAAAAAGACAACAACCCACTATAACCATTATTACCCGATCACCCAAAAAATTAAAATTA
890 TATTTTAAAAAA-A-AACAACCCACTATAACCATTATTACCCGATCACCCAAAAAATTAAAATTA
10223864 AAAAAAAATT
953 AAAAAAAATT
* *
10223874 TCCCCAAATCCCCCAACCCCTTCTTCTTC-TATCGTGAGGTAGAGATTCAGAAAAAAAAGGAAAA
1 TCCCCAAATCCCCCAACCCCTTCTTCTTCTTATCGTAAGGTAGAGATACAGAAAAAAAAGGAAAA
* * *
10223938 AAATTAAGGTTTTAGGTTTTCTTTGTTTTTCTTTGTAAGATATGTCCCTTCTTTCTCCATTTTTT
66 AAATTAAGGTTTTAGGTTTTCTTTGCTTTTCTTTGTAAGATCTGTCCCTTCTTTCTTCATTTTTT
* * * *
10224003 CAATTTCTTTAGACTTTGCTTAGATTACCGTTGATTTCTATCAAAATACATGAAAATAT-AA-AT
131 CAATTTCTTTAAACTTTGCTTAGACTATCATTGATTTCTATCAAAATAC-T-AAAATATAAAGAT
* * *
10224066 -ATTTGCAAAGATTTTGT-TAAAAATTTCTCATCAATCTTTACATATTACAACAAAAAGAAGTAA
194 AATTTGCAAAGATTTTGTAAAAAAATTT-TCATCAATCTTTGCATATTACAACAAAAAGAAGCAA
* * *
10224129 GAATGAAGACAAAAAAATTTAGGTACTTACTTAAAAATTATGAATTTCTGAAAGTGCAAGTGAGA
258 GAATCAAGACAAAAAAATTTA-GT-C-TACTTGAAAATTATGAATTTCTGAAAGTGTAAGTGAGA
*
10224194 TTTTGCTTATAGT-TTTTTGTGATTGTGTTGTGATTTTGTTTAGTTTTGGAGTTTGAATAGTGAA
320 TTTTG-TTATAGTATTTTTGTGATTGTGTTGTGATTTTGTTT-GATTTGGAGTTTGAATAGTGAA
* * * *
10224258 ATTTGAGAGTGAAAATTTAGAGTTTGGGTTGC-TTTTTCTATTTTTTGAATAAATTTCTTGTACT
383 ATTTAAGAGTGAAAATTTAGAGTTTGGGCTGCTTTTTTCTATTTTTTGAACAAATTTCTTGTACC
* * *
10224322 GATAACCAATTCATA-T-TA-CTTTTGGATTGTTTTTTTCTATTGATTTTGGACTGCTCTTTTTT
448 GATAACAAATTCATATTCTATCTTTTAGATTG-CTTTTTCTATTGATTTTGGACTGCTC-TTTTT
* * * *
10224384 TATTATGATTGAAAATTATCTAATTTTGTAGGTGAAGAATATATTTTCTTTGT-TTATTATATTT
511 T-TT-TGATTGAAAATTATCTAATTTTGCAAGTGAAGAATATATTCTCTTTATCTTATTATATTT
* * *
10224448 CTGTTG-TTTTTTTGAAAGGAGTTGGA-TTTTTTA-A-TTTTACTGTAACGAAACAATAATGACA
574 CTGTTGATTTTTTTGAAAGAAGTTGGATTTTTTTATATTTTTACCGTAACGAAACAATAAGGACA
* * * * *
10224509 ATATTGACCTGTTATTGTCGCAA-TTGACCGTTACTCATAAAATTACGGCTGCGATCCACCACTA
639 ATAGTGACCCGTTATTGTCGCAATTTG-CCGTTACCCATAAAATTACGACCGCGATCCACCACTA
* * ** * * *
10224573 TTGGTGTGATTTTGCTTCACACCGCTATTTTTTGTAGTAGCGGTTT-AGAACGACACCGCTACTG
703 TTGGTGTGATTTCGCTTCACACCACTATTTTCAGCAGTAACGATTTCA-AACGACACCGCTACTG
*
10224637 CTATATAGCGACCACTATTTCGCTACCCAACCGCTATTTAAATCTTTGACCCATTATTATCCAGT
767 CTATATAGCGACCACTATTCCGCTACCCAACCGCTATTTAAATCTTTGACCCATTATTATCCAGT
** *
10224702 CTTCTAAAATCAAGAGACCAAAATCCAAAACCCAAAAAATCAAACATAATCCATAATTTATTTT-
832 CACCCAAAATCAAGAGACCAAAATCCAAAACCCAAAAAATCAAACATAATCCATAATTTATTTTA
* *
10224766 -AAAAAAACAACCCA-TCATAACCAATTATTACCCAATCACCCAAAACCCAAAAAAATAAAAATT
897 AAAAAAAACAACCCACT-ATAACC-ATTATTACCCGAT----C---ACCC-AAAAAATTAAAATT
*
10224829 AAAACAAAAAGT
952 AAAA-AAAAATT
* * * * ** * * ***
10224841 TCTCTAAATCCTCCCAACCCCCTTCTTCCTTTTCTTTTTCTTCTATTGT-GAGGTAGAGAGTCAA
1 TCCCCAAATCC-CCCAA-CCCCTTCTT-C--TTC-TTATC--GTAAGGTAGAGATACAGAAAAAA
* * * * *
10224905 AA--AAAAAAATTATGATTTTAAGGTTTT-TTTGCTTTTCTTTGTTAGATCTGCCCCTTCTTTTT
58 AAGGAAAAAAATTAAGGTTTT-AGGTTTTCTTTGCTTTTCTTTGTAAGATCTGTCCCTTCTTTCT
* *
10224967 TCATTTTTT-ATTTAGTTTCTTTAAACTTTGCTTAGACTATTATTGATTTCTATTAAAATATCTA
122 TCATTTTTTCA---A-TTTCTTTAAACTTTGCTTAGACTATCATTGATTTCTATCAAAATA-CT-
* ** * *
10225031 AAAATATAAAGATAATTTACAAAGATTTTGTAAAAAAAAATTCATCAATCTTTGCATGTTACAAT
181 AAAATATAAAGATAATTTGCAAAGATTTTGTAAAAAAATTTTCATCAATCTTTGCATATTACAAC
* * *
10225096 AAAAAGAAGCAAAAATCAAGATAAAAAAATTTCAG---A-TTGAAAATTATGAACTTCTGAAAGT
246 AAAAAGAAGCAAGAATCAAGACAAAAAAATTT-AGTCTACTTGAAAATTATGAATTTCTGAAAGT
* * *
10225157 GTAAGTGATATTTT-TT-TAGATGTTTTTGTGATTGTGTTGTGATTTTATTTGATTTGGAGTTT-
310 GTAAGTGAGATTTTGTTATAG-TATTTTTGTGATTGTGTTGTGATTTTGTTTGATTTGGAGTTTG
* * * * * * *
10225219 AGATAGTGAAATCTAATAGTGAAACTTTAAAGTTTAGGCT-CTTTTTTCTAATTTTTGAACAATT
374 A-ATAGTGAAATTTAAGAGTGAAAATTTAGAGTTTGGGCTGCTTTTTTCTATTTTTTGAACAAAT
* * * **
10225283 TTTTTATACCAATAACTGATTCATATT
438 TTCTTGTACCGATAACAAATTCATATT
10225310 TTTTTATTGC
Statistics
Matches: 5020, Mismatches: 776, Indels: 818
0.76 0.12 0.12
Matches are distributed among these distances:
918 1 0.00
919 95 0.02
920 4 0.00
921 6 0.00
922 61 0.01
923 29 0.01
924 1 0.00
925 24 0.00
926 54 0.01
927 131 0.03
928 133 0.03
929 16 0.00
930 145 0.03
931 232 0.05
932 117 0.02
933 62 0.01
934 69 0.01
935 7 0.00
936 6 0.00
937 51 0.01
938 32 0.01
939 15 0.00
940 14 0.00
941 22 0.00
942 95 0.02
943 50 0.01
944 3 0.00
945 2 0.00
946 3 0.00
947 23 0.00
948 250 0.05
949 79 0.02
950 15 0.00
951 77 0.02
952 4 0.00
953 12 0.00
954 2 0.00
955 14 0.00
956 101 0.02
957 19 0.00
958 120 0.02
959 8 0.00
960 6 0.00
961 270 0.05
962 55 0.01
963 85 0.02
964 49 0.01
965 80 0.02
966 192 0.04
967 70 0.01
968 45 0.01
969 27 0.01
970 58 0.01
971 266 0.05
972 268 0.05
973 136 0.03
974 224 0.04
975 83 0.02
976 133 0.03
977 24 0.00
978 14 0.00
979 153 0.03
980 68 0.01
981 89 0.02
982 163 0.03
983 1 0.00
984 118 0.02
985 18 0.00
986 7 0.00
987 1 0.00
989 1 0.00
990 1 0.00
991 4 0.00
992 106 0.02
993 1 0.00
ACGTcount: A:0.34, C:0.16, G:0.13, T:0.38
Consensus pattern (962 bp):
TCCCCAAATCCCCCAACCCCTTCTTCTTCTTATCGTAAGGTAGAGATACAGAAAAAAAAGGAAAA
AAATTAAGGTTTTAGGTTTTCTTTGCTTTTCTTTGTAAGATCTGTCCCTTCTTTCTTCATTTTTT
CAATTTCTTTAAACTTTGCTTAGACTATCATTGATTTCTATCAAAATACTAAAATATAAAGATAA
TTTGCAAAGATTTTGTAAAAAAATTTTCATCAATCTTTGCATATTACAACAAAAAGAAGCAAGAA
TCAAGACAAAAAAATTTAGTCTACTTGAAAATTATGAATTTCTGAAAGTGTAAGTGAGATTTTGT
TATAGTATTTTTGTGATTGTGTTGTGATTTTGTTTGATTTGGAGTTTGAATAGTGAAATTTAAGA
GTGAAAATTTAGAGTTTGGGCTGCTTTTTTCTATTTTTTGAACAAATTTCTTGTACCGATAACAA
ATTCATATTCTATCTTTTAGATTGCTTTTTCTATTGATTTTGGACTGCTCTTTTTTTTTGATTGA
AAATTATCTAATTTTGCAAGTGAAGAATATATTCTCTTTATCTTATTATATTTCTGTTGATTTTT
TTGAAAGAAGTTGGATTTTTTTATATTTTTACCGTAACGAAACAATAAGGACAATAGTGACCCGT
TATTGTCGCAATTTGCCGTTACCCATAAAATTACGACCGCGATCCACCACTATTGGTGTGATTTC
GCTTCACACCACTATTTTCAGCAGTAACGATTTCAAACGACACCGCTACTGCTATATAGCGACCA
CTATTCCGCTACCCAACCGCTATTTAAATCTTTGACCCATTATTATCCAGTCACCCAAAATCAAG
AGACCAAAATCCAAAACCCAAAAAATCAAACATAATCCATAATTTATTTTAAAAAAAAACAACCC
ACTATAACCATTATTACCCGATCACCCAAAAAATTAAAATTAAAAAAAAATT
Found at i:10225734 original size:34 final size:34
Alignment explanation
Indices: 10225691--10225759 Score: 138
Period size: 34 Copynumber: 2.0 Consensus size: 34
10225681 AAAGAAAACA
10225691 AAGATACATGTCAAAGGAAGGCCTATATTCTGGT
1 AAGATACATGTCAAAGGAAGGCCTATATTCTGGT
10225725 AAGATACATGTCAAAGGAAGGCCTATATTCTGGT
1 AAGATACATGTCAAAGGAAGGCCTATATTCTGGT
10225759 A
1 A
10225760 TAGGTAAGGA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 35 1.00
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.26
Consensus pattern (34 bp):
AAGATACATGTCAAAGGAAGGCCTATATTCTGGT
Found at i:10236060 original size:19 final size:19
Alignment explanation
Indices: 10236031--10236073 Score: 61
Period size: 19 Copynumber: 2.3 Consensus size: 19
10236021 ATCGTGAGTA
*
10236031 TATGA-ATCCTTTAAGGAT
1 TATGAGATCCTTTAAGAAT
*
10236049 TATGAGATCCTTTACGAAT
1 TATGAGATCCTTTAAGAAT
10236068 TATGAG
1 TATGAG
10236074 GTCTGATAAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 5 0.23
19 17 0.77
ACGTcount: A:0.33, C:0.12, G:0.19, T:0.37
Consensus pattern (19 bp):
TATGAGATCCTTTAAGAAT
Found at i:10236128 original size:52 final size:52
Alignment explanation
Indices: 10236049--10236206 Score: 199
Period size: 52 Copynumber: 3.0 Consensus size: 52
10236039 CTTTAAGGAT
* * *
10236049 TATGAGATCCTTTACGAATTATGAGGTCTGATAACTACGTGTCATCGTGAGTA
1 TATGA-ATCATTTACGAATTATGAGGTCAGATGACTACGTGTCATCGTGAGTA
* * * *
10236102 TATGAATCTTTTACGAATTATGAGGTCCGATGACTACGTGTCATTGTGAGCA
1 TATGAATCATTTACGAATTATGAGGTCAGATGACTACGTGTCATCGTGAGTA
* * * * *
10236154 TATGAATCATTTACGGATTATGACGTCAGATGATTAGGTGTTATCGTGAGTA
1 TATGAATCATTTACGAATTATGAGGTCAGATGACTACGTGTCATCGTGAGTA
10236206 T
1 T
10236207 GTAATTCTTA
Statistics
Matches: 91, Mismatches: 14, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
52 86 0.95
53 5 0.05
ACGTcount: A:0.28, C:0.13, G:0.23, T:0.35
Consensus pattern (52 bp):
TATGAATCATTTACGAATTATGAGGTCAGATGACTACGTGTCATCGTGAGTA
Found at i:10243967 original size:17 final size:18
Alignment explanation
Indices: 10243947--10243984 Score: 53
Period size: 17 Copynumber: 2.2 Consensus size: 18
10243937 AAATATGAAA
10243947 ACAAAT-AAAATGCAAGG
1 ACAAATAAAAATGCAAGG
*
10243964 AC-AATAAAAATGCAATG
1 ACAAATAAAAATGCAAGG
10243981 ACAA
1 ACAA
10243985 TTTAAATGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 3
0.82 0.05 0.14
Matches are distributed among these distances:
16 3 0.17
17 14 0.78
18 1 0.06
ACGTcount: A:0.61, C:0.13, G:0.13, T:0.13
Consensus pattern (18 bp):
ACAAATAAAAATGCAAGG
Found at i:10243992 original size:17 final size:17
Alignment explanation
Indices: 10243953--10243985 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
10243943 GAAAACAAAT
10243953 AAAATGCAAGGACAATA
1 AAAATGCAAGGACAATA
*
10243970 AAAATGCAATGACAAT
1 AAAATGCAAGGACAAT
10243986 TTAAATGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.58, C:0.12, G:0.15, T:0.15
Consensus pattern (17 bp):
AAAATGCAAGGACAATA
Found at i:10244390 original size:16 final size:15
Alignment explanation
Indices: 10244369--10244416 Score: 53
Period size: 15 Copynumber: 3.1 Consensus size: 15
10244359 GTCGAGGCAA
10244369 TTCCTTCTTCTTCTTC
1 TTCCTTCTT-TTCTTC
10244385 TTCCTTCTTTTCTT-
1 TTCCTTCTTTTCTTC
* *
10244399 TTTCTCTCTTTTTTTC
1 TTCCT-TCTTTTCTTC
10244415 TT
1 TT
10244417 GCTTTCTCTT
Statistics
Matches: 28, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
14 4 0.14
15 13 0.46
16 11 0.39
ACGTcount: A:0.00, C:0.29, G:0.00, T:0.71
Consensus pattern (15 bp):
TTCCTTCTTTTCTTC
Found at i:10244403 original size:18 final size:18
Alignment explanation
Indices: 10244376--10244428 Score: 56
Period size: 18 Copynumber: 2.9 Consensus size: 18
10244366 CAATTCCTTC
10244376 TTCTTCTTCT-TCCTTCTT
1 TTCTTCTTCTCT-CTTCTT
* *
10244394 TTCTTTTTCTCTCTTTTT
1 TTCTTCTTCTCTCTTCTT
10244412 TTCTTGCTT-TCTCTTCT
1 TTCTT-CTTCTCTCTTCT
10244429 ACTGCAATAC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
18 26 0.90
19 3 0.10
ACGTcount: A:0.00, C:0.28, G:0.02, T:0.70
Consensus pattern (18 bp):
TTCTTCTTCTCTCTTCTT
Done.