Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A03
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: 105315579
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1369460 characters in sequence are not A, C, G, or T
File 96 of 325
Found at i:30864455 original size:9 final size:9
Alignment explanation
Indices: 30864443--30864476 Score: 50
Period size: 9 Copynumber: 3.8 Consensus size: 9
30864433 TAGAACTCAT
*
30864443 CAAAAATCA
1 CAAAAATCC
30864452 CAAAAATCC
1 CAAAAATCC
*
30864461 CGAAAATCC
1 CAAAAATCC
30864470 CAAAAAT
1 CAAAAAT
30864477 TGAGGCGTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
9 22 1.00
ACGTcount: A:0.59, C:0.26, G:0.03, T:0.12
Consensus pattern (9 bp):
CAAAAATCC
Found at i:30865052 original size:47 final size:48
Alignment explanation
Indices: 30864983--30865100 Score: 159
Period size: 47 Copynumber: 2.5 Consensus size: 48
30864973 GTATAATGCA
* * *
30864983 GATGCCATGTCCCAGACATGGTCTTACACTGGCTCATC-CATC-AAGTC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCAAATCGAAGCC
*
30865030 GATGCCATGTCCCAGACATGGTCTTACACTGACTATCGAAATCGAGGCC
1 GATGCCATGTCCCAGACATGGTCTTACACTGACTATC-AAATCGAAGCC
*
30865079 GACGCCATGTCCCAGACATGGT
1 GATGCCATGTCCCAGACATGGT
30865101 AGCTCTCACA
Statistics
Matches: 63, Mismatches: 5, Indels: 4
0.88 0.07 0.06
Matches are distributed among these distances:
46 3 0.05
47 33 0.52
48 3 0.05
49 24 0.38
ACGTcount: A:0.25, C:0.31, G:0.22, T:0.23
Consensus pattern (48 bp):
GATGCCATGTCCCAGACATGGTCTTACACTGACTATCAAATCGAAGCC
Found at i:30865221 original size:46 final size:46
Alignment explanation
Indices: 30865166--30865287 Score: 144
Period size: 46 Copynumber: 2.6 Consensus size: 46
30865156 ATCTCGTAGT
30865166 CGATGCATGTCCCAGACATGTCTTACACTGGC-TCTCGTC-TCAA-T-GA
1 CGATGCATGTCCCAGACATGTCTTACACTGGCAT-T--TCAT-AAGTGGA
* * *
30865212 CGATGCATGTCCTAGACATGTCTTGCACTGGCATTTCATAATGTGGC
1 CGATGCATGTCCCAGACATGTCTTACACTGGCATTTCATAA-GTGGA
30865259 CGATGCATGTCCCAGACATGTCTTACACT
1 CGATGCATGTCCCAGACATGTCTTACACT
30865288 AGCACAAACA
Statistics
Matches: 66, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
44 4 0.06
45 1 0.02
46 32 0.48
47 29 0.44
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGTCTTACACTGGCATTTCATAAGTGGA
Found at i:30867867 original size:15 final size:14
Alignment explanation
Indices: 30867832--30867886 Score: 58
Period size: 15 Copynumber: 3.7 Consensus size: 14
30867822 TCCATAACGG
30867832 AGAAATCCAGAATATA
1 AGAAATCCA-AATA-A
30867848 A-AAATCCAACATAA
1 AGAAATCCAA-ATAA
*
30867862 AGAAATCCAAAAAA
1 AGAAATCCAAATAA
30867876 AGAAAATCCAA
1 AG-AAATCCAA
30867887 TCACGATACT
Statistics
Matches: 35, Mismatches: 1, Indels: 7
0.81 0.02 0.16
Matches are distributed among these distances:
14 8 0.23
15 26 0.74
16 1 0.03
ACGTcount: A:0.64, C:0.16, G:0.07, T:0.13
Consensus pattern (14 bp):
AGAAATCCAAATAA
Found at i:30871566 original size:26 final size:26
Alignment explanation
Indices: 30871537--30871587 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 26
30871527 ATAAAAATAG
*
30871537 ATAATGGGTTATGCAAATGTTCCATT
1 ATAATGGGTTAGGCAAATGTTCCATT
*
30871563 ATAATGGGTTAGGTAAATGTTCCAT
1 ATAATGGGTTAGGCAAATGTTCCAT
30871588 GATGGGCATT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.31, C:0.10, G:0.22, T:0.37
Consensus pattern (26 bp):
ATAATGGGTTAGGCAAATGTTCCATT
Found at i:30878988 original size:26 final size:26
Alignment explanation
Indices: 30878952--30879002 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
30878942 AAAATAGATA
*
30878952 ATGGGTTAGGTAAATGTTCCATGATC
1 ATGGGTTAGGTAAATATTCCATGATC
30878978 ATGGGTTAGGTAAATATTCCATGAT
1 ATGGGTTAGGTAAATATTCCATGAT
30879003 GGGCATTTCG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.29, C:0.10, G:0.25, T:0.35
Consensus pattern (26 bp):
ATGGGTTAGGTAAATATTCCATGATC
Found at i:30882024 original size:47 final size:49
Alignment explanation
Indices: 30881950--30882079 Score: 176
Period size: 47 Copynumber: 2.7 Consensus size: 49
30881940 AGGGTATAAT
30881950 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCATC-C-AT-CAA
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTC-TCACAATCCAA
* **
30881997 GCCGGTGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACATATCCGT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACA-ATCCAA
* *
30882047 GCCGATGTCATGTCCTAGACATGGTCTTACACT
1 GCCGATGCCATGTCCCAGACATGGTCTTACACT
30882080 GACACTTCTC
Statistics
Matches: 73, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
46 2 0.03
47 38 0.52
49 2 0.03
50 31 0.42
ACGTcount: A:0.22, C:0.32, G:0.19, T:0.26
Consensus pattern (49 bp):
GCCGATGCCATGTCCCAGACATGGTCTTACACTAGCTCTCACAATCCAA
Found at i:30886858 original size:50 final size:50
Alignment explanation
Indices: 30886783--30886879 Score: 131
Period size: 50 Copynumber: 1.9 Consensus size: 50
30886773 TCATCTAACG
* ** **
30886783 TGATTGCCAGGTCGTGTTTGATCCGTCAAATTGTACACAACCGTGTGACA
1 TGATTGCCAGGCCGTGTTAAATCCGTCAAATTACACACAACCGTGTGACA
* *
30886833 TGATTGCCAGGCCGTGTTAAATCCGTTAAATTACACACGACCGTGTG
1 TGATTGCCAGGCCGTGTTAAATCCGTCAAATTACACACAACCGTGTG
30886880 GGTCAATGGC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
50 40 1.00
ACGTcount: A:0.25, C:0.23, G:0.24, T:0.29
Consensus pattern (50 bp):
TGATTGCCAGGCCGTGTTAAATCCGTCAAATTACACACAACCGTGTGACA
Found at i:30897652 original size:40 final size:40
Alignment explanation
Indices: 30897571--30897821 Score: 368
Period size: 40 Copynumber: 6.3 Consensus size: 40
30897561 ATAACGGGGA
* *
30897571 TAAGTCCCGAAGGCATTTGTGC-AGTGACTA-ATTTCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGC
*
30897610 TAAGTCCCAAAGGCATTTGTGCGAGTTACTA-ATTCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGGGC
30897650 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGC
30897690 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGC
**
30897730 TAAGTCCCGAAGGCATTTGTGCGAACTACTATATCCGGGC
1 TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGC
* *
30897770 TAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC-GGT
1 TAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCCGGGC
*
30897809 TAAATCCCGAAGG
1 TAAGTCCCGAAGG
30897822 TACTTGGTTT
Statistics
Matches: 199, Mismatches: 10, Indels: 6
0.93 0.05 0.03
Matches are distributed among these distances:
39 37 0.19
40 161 0.81
41 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
TAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGGGC
Found at i:30905723 original size:40 final size:40
Alignment explanation
Indices: 30905668--30905881 Score: 296
Period size: 39 Copynumber: 5.5 Consensus size: 40
30905658 CGGATGATAA
* *
30905668 CGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TC
*
30905708 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATT
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
30905747 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
**
30905787 C-GGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
*
30905826 CGGGCTAAGTCCC-AAGGCATTTGAGCGAG-TAGCTATATC
1 CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATC
* *
30905865 C-GGTTAAATCCCGAAGG
1 CGGGCTAAGTCCCGAAGG
30905882 TACTTAGTTT
Statistics
Matches: 160, Mismatches: 10, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
38 11 0.07
39 100 0.62
40 49 0.31
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.26
Consensus pattern (40 bp):
CGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATC
Found at i:30910372 original size:14 final size:14
Alignment explanation
Indices: 30910355--30910396 Score: 59
Period size: 14 Copynumber: 3.1 Consensus size: 14
30910345 AACGTAGTTT
30910355 TAAAAATATAAAAG
1 TAAAAATATAAAAG
*
30910369 TAAAAATATAAAAA
1 TAAAAATATAAAAG
*
30910383 TAATAA-ATAAAAG
1 TAAAAATATAAAAG
30910396 T
1 T
30910397 CTTTAAACAT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
13 7 0.28
14 18 0.72
ACGTcount: A:0.71, C:0.00, G:0.05, T:0.24
Consensus pattern (14 bp):
TAAAAATATAAAAG
Found at i:30942933 original size:15 final size:15
Alignment explanation
Indices: 30942913--30942942 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
30942903 CAACACTTGT
30942913 GCCGAAACCACAAAA
1 GCCGAAACCACAAAA
*
30942928 GCCGAAACCTCAAAA
1 GCCGAAACCACAAAA
30942943 AAATACATTA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.33, G:0.13, T:0.03
Consensus pattern (15 bp):
GCCGAAACCACAAAA
Found at i:30949934 original size:14 final size:14
Alignment explanation
Indices: 30949915--30949946 Score: 64
Period size: 14 Copynumber: 2.3 Consensus size: 14
30949905 CCTCCCTTTG
30949915 GTACGATCCTCGGA
1 GTACGATCCTCGGA
30949929 GTACGATCCTCGGA
1 GTACGATCCTCGGA
30949943 GTAC
1 GTAC
30949947 TTCCATACTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.22, C:0.28, G:0.28, T:0.22
Consensus pattern (14 bp):
GTACGATCCTCGGA
Found at i:30957588 original size:40 final size:40
Alignment explanation
Indices: 30957540--30957767 Score: 377
Period size: 40 Copynumber: 5.7 Consensus size: 40
30957530 GCTACTCACT
30957540 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
*
30957580 CAATTGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* * *
30957620 CAATTGCCTTCGGGACTTGGCCCGGTTATAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
30957660 CAAATGCCTTCGAGACTTAGCCCGGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
* *
30957700 CAAATGCCTTCGGGACTTAGCCCAGATATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
30957740 CAAATGCCTTCGGG-CTTAGCCCGGTTAT
1 CAAATGCCTTCGGGACTTAGCCCGGTTAT
30957768 CAATCCGAAT
Statistics
Matches: 176, Mismatches: 12, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
39 12 0.07
40 164 0.93
ACGTcount: A:0.24, C:0.28, G:0.22, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGTTATAGTAACTCGCA
Found at i:30964299 original size:15 final size:15
Alignment explanation
Indices: 30964275--30964305 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
30964265 CTAATGTATT
30964275 TTTTGAGGTTTCGGC
1 TTTTGAGGTTTCGGC
*
30964290 TTTTGTGGTTTCGGC
1 TTTTGAGGTTTCGGC
30964305 T
1 T
30964306 AGAGAGGAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.03, C:0.13, G:0.32, T:0.52
Consensus pattern (15 bp):
TTTTGAGGTTTCGGC
Found at i:30974120 original size:79 final size:81
Alignment explanation
Indices: 30974018--30974202 Score: 229
Period size: 79 Copynumber: 2.3 Consensus size: 81
30974008 GCTCCTCGTT
* *
30974018 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCACAAATGCCTTCGGGA-CTTAACC
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCACAAATGCCTTC-GGATCTTAACC
* *
30974080 CGGATTTAGTAAC-TCGCA
63 CGGATATAGTAACTTAGCA
**
30974098 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAGTCCGG
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
* *
30974162 ATATGGTCACTTAGCA
66 ATATAGTAACTTAGCA
30974178 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
30974203 CATCATTCAA
Statistics
Matches: 92, Mismatches: 8, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
78 5 0.05
79 53 0.58
80 34 0.37
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (81 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAATGCCTTCGGATCTTAACCCGG
ATATAGTAACTTAGCA
Found at i:30974202 original size:40 final size:40
Alignment explanation
Indices: 30974018--30974202 Score: 211
Period size: 40 Copynumber: 4.7 Consensus size: 40
30974008 GCTCCTCGTT
* * *
30974018 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTACTTCGCA
* *
30974058 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAAC-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGT-ACTTCGCA
30974098 CAAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTA-TCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTACT-TCGCA
* * *
30974137 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGT-ACTTCGCA
30974178 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
30974203 CATCATTCAA
Statistics
Matches: 124, Mismatches: 11, Indels: 20
0.80 0.07 0.13
Matches are distributed among these distances:
38 3 0.02
39 30 0.24
40 76 0.61
41 14 0.11
42 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTACTTCGCA
Found at i:30981933 original size:39 final size:41
Alignment explanation
Indices: 30981811--30981994 Score: 188
Period size: 39 Copynumber: 4.6 Consensus size: 41
30981801 AGCTCTCGTT
* *
30981811 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGT-ATCTCGCA
* * * *
30981851 CAAATGCCTTCGGGACTTAACCCGGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTATCTCGCA
30981892 CAAATGCCTTCGGG-CTTAGCCCGGAAT-TAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATATAGTATCTCGCA
* * * *
30981931 CAAATGCCTTC--GATCTTAGTCCGG-ATATGGCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAATATAGTATC-TCGCA
30981970 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
30981995 CATCATTCAA
Statistics
Matches: 122, Mismatches: 13, Indels: 18
0.80 0.08 0.12
Matches are distributed among these distances:
37 1 0.01
38 9 0.07
39 51 0.42
40 37 0.30
41 24 0.20
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.24
Consensus pattern (41 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATATAGTATCTCGCA
Found at i:30985919 original size:50 final size:49
Alignment explanation
Indices: 30985756--30985980 Score: 261
Period size: 49 Copynumber: 4.5 Consensus size: 49
30985746 CTGGTACGCA
* * * *
30985756 TAGTAGCCTGCACATAGTAGTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
*
30985805 TAGTAGCCTGCACTTAGTACTACACACATGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
* * ** * *
30985854 TAGTAGCCTTCACTTAGTATTACACACGTGACCTAACCATCTGATACACG
1 TAGTAGCCTGCACTTAGTACTACACACGTGACC-AATTATCCGGTACACG
* * * ** *
30985904 TAGTAGCCTGCACTTAGTACTACACACGTGATCATAGTTTTCGGGTATGCA
1 TAGTAGCCTGCACTTAGTACTACACACGTGACCA-A-TTATCCGGTACACG
*
30985955 TAGTAGCCTCCACTTAGTACTACACA
1 TAGTAGCCTGCACTTAGTACTACACA
30985981 TGCGACCTCA
Statistics
Matches: 149, Mismatches: 24, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
49 75 0.50
50 43 0.29
51 31 0.21
ACGTcount: A:0.29, C:0.27, G:0.17, T:0.27
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACACGTGACCAATTATCCGGTACACG
Found at i:30985922 original size:99 final size:101
Alignment explanation
Indices: 30985743--30985980 Score: 275
Period size: 99 Copynumber: 2.4 Consensus size: 101
30985733 TAGCCAAAGC
* * * * * * * ** * *
30985743 TATCTGGTACGCATAGTAGCCTGCACATAGTAGTACACATGCGACC-AATTATCCGGTACACGTA
1 TATCCGGTACACATAGTAGCCTCCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTA
30985807 GTAGCCTGCACTTAGTACTACACACATGACCA-A-T
66 GTAGCCTGCACTTAGTACTACACACATGACCATAGT
* * *
30985841 TATCCGGTACACGTAGTAGCCTTCACTTAGTATTACACACGTGACCTAACCATCTGATACACGTA
1 TATCCGGTACACATAGTAGCCTCCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTA
* *
30985906 GTAGCCTGCACTTAGTACTACACACGTGATCATAGT
66 GTAGCCTGCACTTAGTACTACACACATGACCATAGT
* * **
30985942 TTTCGGGTATGCATAGTAGCCTCCACTTAGTACTACACA
1 TATCCGGTACACATAGTAGCCTCCACTTAGTACTACACA
30985981 TGCGACCTCA
Statistics
Matches: 116, Mismatches: 21, Indels: 3
0.83 0.15 0.02
Matches are distributed among these distances:
98 38 0.33
99 44 0.38
100 1 0.01
101 33 0.28
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.27
Consensus pattern (101 bp):
TATCCGGTACACATAGTAGCCTCCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTA
GTAGCCTGCACTTAGTACTACACACATGACCATAGT
Found at i:30992293 original size:28 final size:28
Alignment explanation
Indices: 30992248--30992311 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
30992238 GTCTATGGCT
* *
30992248 CGTGTCCCTCACAGGGCCATGACACGCC
1 CGTGTCCCTCACACGGCCAGGACACGCC
* *
30992276 CGTGTCCCTCACCCGGCCAGGACACGCG
1 CGTGTCCCTCACACGGCCAGGACACGCC
30992304 CGTG-CCCT
1 CGTGTCCCT
30992312 AGCCCATGTT
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
27 4 0.12
28 28 0.88
ACGTcount: A:0.14, C:0.45, G:0.27, T:0.14
Consensus pattern (28 bp):
CGTGTCCCTCACACGGCCAGGACACGCC
Found at i:30993546 original size:147 final size:145
Alignment explanation
Indices: 30993271--30993579 Score: 343
Period size: 146 Copynumber: 2.2 Consensus size: 145
30993261 ATGTCGATGC
* * * *
30993271 CATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAAGTCGATGCCATGTCCCAGACATGGCC
1 CATGTCCCAGACATGGTCTTACACTGACACATCCATCAAGTCAATGCCATATCCCAGACATGGCC
*
30993336 TTACACTGACTACAGAAATCGTGGCCGACACCATGTCCCAGACAAGGTCTTACACTAGCTCTCAC
66 TTACACTGACTACA-AAATCGTAGCCGACACCATGTCCCAGACAAGGTCTTACACTAGCTCTCAC
30993401 ATATCCGTGCGAATGT
130 ATATCCGTGCGAATGT
* * *
30993417 CATGTCCCAGACATGGTCTTACACTGACACCTCTAT-ATGTGCCAATGCCATATCCCAGACATGG
1 CATGTCCCAGACATGGTCTTACACTGACACATCCATCAAGT--CAATGCCATATCCCAGACATGG
* ** ** * *
30993481 TCTTACACTGAC-AC-ATCTCGTAGCCGA-TGCATGTCCCAGAC-ATGTCTTACACTGGCT-T-A
64 CCTTACACTGACTACAAAATCGTAGCCGACACCATGTCCCAGACAAGGTCTTACACTAGCTCTCA
* *
30993540 CATCTCAAG-GCCG-ATG-
129 CATATC-CGTG-CGAATGT
30993556 CATGTCCCAGACAT-GTCTTACACT
1 CATGTCCCAGACATGGTCTTACACT
30993580 AGCTTTCGTC
Statistics
Matches: 142, Mismatches: 17, Indels: 16
0.81 0.10 0.09
Matches are distributed among these distances:
138 10 0.07
139 14 0.10
140 10 0.07
141 4 0.03
142 14 0.10
143 12 0.08
144 10 0.07
145 3 0.02
146 34 0.24
147 31 0.22
ACGTcount: A:0.26, C:0.31, G:0.18, T:0.25
Consensus pattern (145 bp):
CATGTCCCAGACATGGTCTTACACTGACACATCCATCAAGTCAATGCCATATCCCAGACATGGCC
TTACACTGACTACAAAATCGTAGCCGACACCATGTCCCAGACAAGGTCTTACACTAGCTCTCACA
TATCCGTGCGAATGT
Found at i:30993553 original size:46 final size:47
Alignment explanation
Indices: 30993265--30993673 Score: 303
Period size: 46 Copynumber: 8.7 Consensus size: 47
30993255 GGTATAATGT
*
30993265 CGATGCCATGTCCCAGACATGGTCTTACACTGGCT-CATCCATCAA-GT
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTACAT-C-TCAAGGC
* * ** **
30993312 CGATGCCATGTCCCAGACATGGCCTTACACTGACTACAGAAATCGTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTAC--ATCTCAAGGC
** * * * *
30993361 CGACACCATGTCCCAGACAAGGTCTTACACTAGCTCTCACATATC-CGTG-
1 CGATGCCATGTCCCAGACATGGTCTTACACT-G-GCT-ACATCTCAAG-GC
* * *
30993410 CGAATGTCATGTCCCAGACATGGTCTTACACTGAC-ACCTCT-ATATGTGC
1 CG-ATGCCATGTCCCAGACATGGTCTTACACTGGCTACATCTCA-A-G-GC
* * * *
30993459 CAATGCCATATCCCAGACATGGTCTTACACTGAC-ACATCTCGTA-GC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTACATCTC-AAGGC
30993505 CGATG-CATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCAAGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGC-TACATCTCAAGGC
* * * *
30993551 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCTTTCGTCTCAATGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGC-TACATCTCAAGGC
*
30993597 GGATGCCATGTCCCAGACATGGTCTTACACTGGCT-C-TCAT-AATGTGGC
1 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTACATC-TCAA---GGC
30993645 CGATG-CATGTCCCAGACAT-GTCTTACACT
1 CGATGCCATGTCCCAGACATGGTCTTACACT
30993674 AGCACACAAA
Statistics
Matches: 299, Mismatches: 39, Indels: 49
0.77 0.10 0.13
Matches are distributed among these distances:
44 12 0.04
45 18 0.06
46 77 0.26
47 62 0.21
48 60 0.20
49 34 0.11
50 32 0.11
51 2 0.01
52 2 0.01
ACGTcount: A:0.24, C:0.31, G:0.19, T:0.26
Consensus pattern (47 bp):
CGATGCCATGTCCCAGACATGGTCTTACACTGGCTACATCTCAAGGC
Found at i:30993646 original size:94 final size:92
Alignment explanation
Indices: 30993265--30993679 Score: 321
Period size: 94 Copynumber: 4.4 Consensus size: 92
30993255 GGTATAATGT
* *
30993265 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCCATCAA-GTC-GATGCCATGTCCCAG
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCACAT-C-TCAATG-CGGATGCCATGTCCCAG
* * *
30993328 ACATGGCCTTACACTGACTACAGAAATCGTGGC
61 ACATGGTCTTACACTGACTTCA-TAATCGTGGC
** * * ** * *
30993361 CGACACCATGTCCCAGACAAGGTCTTACACTAGCTCTCACATATCCGTGCGAATGTCATGTCCCA
1 CGA-TGCATGTCCCAGAC-ATGTCTTACACTAG----CACATCTCAATGCGGATGCCATGTCCCA
*
30993426 GACATGGTCTTACACTGACACCTC-TATAT-GT-GC
60 GACATGGTCTTACACTG--ACTTCATA-ATCGTGGC
* * * *
30993459 CAATGCCATATCCCAGACATGGTCTTACACT-GACACATCTC-GTAGCCGATG-CATGTCCCAGA
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAG-CACATCTCAAT-GCGGATGCCATGTCCCAGA
* * **
30993521 CAT-GTCTTACACTGGCTTACAT-CTCAAGGC
62 CATGGTCTTACACTGACTT-CATAATCGTGGC
* *
30993551 CGATGCATGTCCCAGACATGTCTTACACTAGCTTTCGTCTCAATGCGGATGCCATGTCCCAGACA
1 CGATGCATGTCCCAGACATGTCTTACACTAGC--ACATCTCAATGCGGATGCCATGTCCCAGACA
*
30993616 TGGTCTTACACTGGCTCTCATAAT-GTGGC
64 TGGTCTTACACTGACT-TCATAATCGTGGC
30993645 CGATGCATGTCCCAGACATGTCTTACACTAGCACA
1 CGATGCATGTCCCAGACATGTCTTACACTAGCACA
30993680 CAAATAACCC
Statistics
Matches: 254, Mismatches: 39, Indels: 56
0.73 0.11 0.16
Matches are distributed among these distances:
90 14 0.06
91 15 0.06
92 30 0.12
93 31 0.12
94 64 0.25
95 2 0.01
96 26 0.10
97 3 0.01
98 28 0.11
99 32 0.13
100 6 0.02
101 3 0.01
ACGTcount: A:0.25, C:0.31, G:0.19, T:0.25
Consensus pattern (92 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCACATCTCAATGCGGATGCCATGTCCCAGACATG
GTCTTACACTGACTTCATAATCGTGGC
Found at i:30996718 original size:43 final size:42
Alignment explanation
Indices: 30996620--30996744 Score: 128
Period size: 43 Copynumber: 3.0 Consensus size: 42
30996610 CATAAAGCTC
* ** *
30996620 ATACAATGTC-ATATCCCAGACATGGTCTTACACAAAATCAT
1 ATACAATGTCAATGTCCCAGACATGGTCTTACACGTAATCAA
* *
30996661 ATA-ATGATGCCAATGTCCCAGACATGGTTTTACACGTAATCACA
1 ATACA--ATGTCAATGTCCCAGACATGGTCTTACACGTAATCA-A
** *
30996705 ATACAATGTCAATGTCCTTGACATGGTCTTACATGTAATC
1 ATACAATGTCAATGTCCCAGACATGGTCTTACACGTAATC
30996745 TCATCTCTGT
Statistics
Matches: 68, Mismatches: 11, Indels: 8
0.78 0.13 0.09
Matches are distributed among these distances:
40 1 0.01
41 3 0.04
42 4 0.06
43 56 0.82
44 3 0.04
45 1 0.01
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.30
Consensus pattern (42 bp):
ATACAATGTCAATGTCCCAGACATGGTCTTACACGTAATCAA
Found at i:30996937 original size:35 final size:35
Alignment explanation
Indices: 30996871--30996937 Score: 80
Period size: 35 Copynumber: 1.9 Consensus size: 35
30996861 TTCATAGCAG
* **
30996871 TTCAATGACAAATAAGCATATATAATTCAATTCAA
1 TTCAATAACAAATAAGCATATATAACACAATTCAA
* * *
30996906 TTCAATAATAAATAAGCATTTGTAACACAATT
1 TTCAATAACAAATAAGCATATATAACACAATT
30996938 TAAATACGTT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
35 26 1.00
ACGTcount: A:0.48, C:0.13, G:0.06, T:0.33
Consensus pattern (35 bp):
TTCAATAACAAATAAGCATATATAACACAATTCAA
Found at i:31000833 original size:40 final size:40
Alignment explanation
Indices: 31000765--31000948 Score: 248
Period size: 40 Copynumber: 4.6 Consensus size: 40
31000755 TACTCGAATG
31000765 ATATCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
*
31000805 ATATCC-GGCTAAGTCCCGAAGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* *
31000845 ACATCCGGACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
31000885 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
31000925 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
31000949 CTTGTGCGAG
Statistics
Matches: 130, Mismatches: 10, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 18 0.14
40 89 0.68
41 22 0.17
42 1 0.01
ACGTcount: A:0.25, C:0.25, G:0.26, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:31008912 original size:40 final size:40
Alignment explanation
Indices: 31008818--31008962 Score: 175
Period size: 40 Copynumber: 3.6 Consensus size: 40
31008808 TACTCGAATG
* *
31008818 ATATCCGGGCTAAGTCCCGACGGCTTTTGTGCTAAGCGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCT-AGCGACT
* **
31008859 ACATCCGAACTAAGAT-CCGAAGGCATTTGTGCTAGCGACT
1 ATATCCGGGCTAAG-TCCCGAAGGCATTTGTGCTAGCGACT
* * *
31008899 ATATCCGGGCTAAGTCCCGAAGGCATTTATGCTAGTGACC
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
* *
31008939 ATATCCGGGTTAAGACCCGAAGGC
1 ATATCCGGGCTAAGTCCCGAAGGC
31008963 CTTGTGCGAG
Statistics
Matches: 89, Mismatches: 13, Indels: 5
0.83 0.12 0.05
Matches are distributed among these distances:
39 1 0.01
40 61 0.69
41 26 0.29
42 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.26, T:0.23
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGCGACT
Found at i:31016266 original size:43 final size:42
Alignment explanation
Indices: 31016210--31016321 Score: 113
Period size: 43 Copynumber: 2.6 Consensus size: 42
31016200 CTCATATCGG
*
31016210 TGCCAATAG-CCCAACTATGGTCTTA-GACGAAATCAC-ATAACGA
1 TGCCAAT-GTCCCAAC-ATGGTCTTACG-CGAAATCACAATAA-AA
* * *
31016253 TGCCAATGTCCCAAACATGGTTTTACGTGTAATCACAATAAAA
1 TGCCAATGTCCC-AACATGGTCTTACGCGAAATCACAATAAAA
31016296 TGCCAATGTCCCAGACATGGTCTTAC
1 TGCCAATGTCCCA-ACATGGTCTTAC
31016322 ATGTAGCCAC
Statistics
Matches: 59, Mismatches: 5, Indels: 10
0.80 0.07 0.14
Matches are distributed among these distances:
42 2 0.03
43 49 0.83
44 8 0.14
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (42 bp):
TGCCAATGTCCCAACATGGTCTTACGCGAAATCACAATAAAA
Found at i:31021031 original size:40 final size:40
Alignment explanation
Indices: 31020972--31021148 Score: 216
Period size: 40 Copynumber: 4.5 Consensus size: 40
31020962 ACCCAAGTAT
31020972 CTTCGGGAT-TTAG-CCGGATATAACAACTCGCACAAATGC
1 CTTCGGG-TCTTAGCCCGGATATAACAACTCGCACAAATGC
* *
31021011 CTTCGGGTCTTAGTCCGGATATAGCAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
* *
31021051 CTTCGGGTCTTAGCCCGGATATAATC-ACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAA-CAACTCGCACAAATGC
* * * * *
31021091 CTTCGGGACATAGCCCGGATATAGCAACTCGCACGAATGT
1 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
* *
31021131 CTTCGGATCTTAGTCCGG
1 CTTCGGGTCTTAGCCCGG
31021149 TTATCATCCG
Statistics
Matches: 118, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
38 1 0.01
39 12 0.10
40 104 0.88
41 1 0.01
ACGTcount: A:0.26, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAACAACTCGCACAAATGC
Found at i:31032547 original size:18 final size:18
Alignment explanation
Indices: 31032507--31032561 Score: 65
Period size: 18 Copynumber: 2.9 Consensus size: 18
31032497 CTACATCAGG
*
31032507 CCCAAATAGCCCAAAAAAAA
1 CCCAAATGGCCC--AAAAAA
* *
31032527 CCCCAATGGCCCAAAAGA
1 CCCAAATGGCCCAAAAAA
31032545 CCCAAATGGCCCAAAAA
1 CCCAAATGGCCCAAAAA
31032562 CCTAAAAACC
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
18 20 0.67
20 10 0.33
ACGTcount: A:0.49, C:0.35, G:0.11, T:0.05
Consensus pattern (18 bp):
CCCAAATGGCCCAAAAAA
Found at i:31033652 original size:4 final size:4
Alignment explanation
Indices: 31033632--31033672 Score: 50
Period size: 4 Copynumber: 10.5 Consensus size: 4
31033622 TTTTTATGTA
*
31033632 TTAT TT-T TTATT TTAT TTAT TTAT TTAT TTAC TTA- TTAT TT
1 TTAT TTAT TTA-T TTAT TTAT TTAT TTAT TTAT TTAT TTAT TT
31033673 CCTTTGTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
3 6 0.18
4 23 0.70
5 4 0.12
ACGTcount: A:0.22, C:0.02, G:0.00, T:0.76
Consensus pattern (4 bp):
TTAT
Found at i:31033655 original size:20 final size:20
Alignment explanation
Indices: 31033615--31033672 Score: 64
Period size: 20 Copynumber: 2.8 Consensus size: 20
31033605 CTGTCTAAAT
* *
31033615 TTTTTTATTTTTATGTATTA
1 TTTTTTACTTTTATTTATTA
31033635 TTTTTTA-TTTTATTTATTTA
1 TTTTTTACTTTTATTTA-TTA
31033655 TTTATTTACTTATTATTT
1 TTT-TTTACTT-TTATTT
31033673 CCTTTGTTTA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
19 8 0.24
20 13 0.39
21 4 0.12
22 2 0.06
23 6 0.18
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.76
Consensus pattern (20 bp):
TTTTTTACTTTTATTTATTA
Found at i:31045898 original size:44 final size:44
Alignment explanation
Indices: 31045754--31046398 Score: 488
Period size: 44 Copynumber: 14.3 Consensus size: 44
31045744 ATCCTATGCT
*
31045754 CTGAAGTTGCAGTGGGACAGATTGAAGTCATCGTAGCAAATCTTATCTCC
1 CTGAAGTTGCAGTGGAACAGATTGAAG----C-TA-CAAATCTTATCTCC
** * * * *
31045804 CCAAAGTTGTAGTGGAGCAGATTGAAACTA-TAATCTTATCTCC
1 CTGAAGTTGCAGTGGAACAGATTGAAGCTACAAATCTTATCTCC
*
31045847 TTGAAGTTGCAGTGGAACAGATTGAAGCTACAAATCTTATCTCC
1 CTGAAGTTGCAGTGGAACAGATTGAAGCTACAAATCTTATCTCC
* * * *
31045891 CTGAAGTTGCAGTGGAGCAGATTGAAGTTAGCAAATCTTATTTTC
1 CTGAAGTTGCAGTGGAACAGATTGAAGCTA-CAAATCTTATCTCC
* * *
31045936 CTGAAGTTGTAGTGGAACAGATTAAAGTTACAAGTTACAAATCTTATTTCC
1 CTGAAGTTGCAGTGGAACAGATT---G----AAGCTACAAATCTTATCTCC
* ** * * *
31045987 CTAAAGTTGCAGTAAAATAGATTAAAGCTACAAATCTTATTTCC
1 CTGAAGTTGCAGTGGAACAGATTGAAGCTACAAATCTTATCTCC
* *
31046031 CTGAAGTTACAGTAGAGA-AGATTGAAGCTACAAATCTTATCTCC
1 CTGAAGTTGCAGTGGA-ACAGATTGAAGCTACAAATCTTATCTCC
* ** * *
31046075 CTAAAGTTGCAGTGGAGTAGATTAAAGATAGCAAATCTTATCTCC
1 CTGAAGTTGCAGTGGAACAGATTGAAGCTA-CAAATCTTATCTCC
* * * *
31046120 CTGAAGTTGCAGTAGAATAGATTGAAGCTATAAATCTTTTCTCC
1 CTGAAGTTGCAGTGGAACAGATTGAAGCTACAAATCTTATCTCC
* * *
31046164 CTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCT
1 CTGAAGTTGCAGTGGAACAGATTGAAGCTA-CAAATCTTATCTCC
* * * * * * * * *
31046209 CTGAAGTTTCAATAGAGCAGATTAAAACCATAAATCTTATCTCT
1 CTGAAGTTGCAGTGGAACAGATTGAAGCTACAAATCTTATCTCC
** * * * *
31046253 CAAAAGTTGCAGTGGAGCAGATTAAAGCCATAAATCTTATCTCC
1 CTGAAGTTGCAGTGGAACAGATTGAAGCTACAAATCTTATCTCC
* * * * * * *
31046297 CTGAAATTACAGT-GAAGTAGATTAAAACTACGAATCTCATCTCC
1 CTGAAGTTGCAGTGGAA-CAGATTGAAGCTACAAATCTTATCTCC
* * * ** * ** * * *
31046341 TTG-AGTTGTAGCGGAGTAAATTGAAATTACAATTCCTATATCC
1 CTGAAGTTGCAGTGGAACAGATTGAAGCTACAAATCTTATCTCC
31046384 CTGAAGTTGCAGTGG
1 CTGAAGTTGCAGTGG
31046399 GTTGGAAAGA
Statistics
Matches: 482, Mismatches: 97, Indels: 38
0.78 0.16 0.06
Matches are distributed among these distances:
43 64 0.13
44 249 0.52
45 109 0.23
46 1 0.00
48 1 0.00
50 21 0.04
51 31 0.06
52 6 0.01
ACGTcount: A:0.34, C:0.17, G:0.19, T:0.30
Consensus pattern (44 bp):
CTGAAGTTGCAGTGGAACAGATTGAAGCTACAAATCTTATCTCC
Found at i:31045994 original size:51 final size:52
Alignment explanation
Indices: 31045915--31046019 Score: 140
Period size: 51 Copynumber: 2.0 Consensus size: 52
31045905 GAGCAGATTG
* * * ** *
31045915 AAGTTAGCAAATCTTATTTTCCTGAAGTTGTAGTGGAACAGATTAAAGTTAC
1 AAGTTAGCAAATCTTATTTCCCTAAAGTTGCAGTAAAACAGATTAAAGCTAC
*
31045967 AAGTTA-CAAATCTTATTTCCCTAAAGTTGCAGTAAAATAGATTAAAGCTAC
1 AAGTTAGCAAATCTTATTTCCCTAAAGTTGCAGTAAAACAGATTAAAGCTAC
31046018 AA
1 AA
31046020 ATCTTATTTC
Statistics
Matches: 46, Mismatches: 7, Indels: 1
0.85 0.13 0.02
Matches are distributed among these distances:
51 40 0.87
52 6 0.13
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.32
Consensus pattern (52 bp):
AAGTTAGCAAATCTTATTTCCCTAAAGTTGCAGTAAAACAGATTAAAGCTAC
Found at i:31046147 original size:89 final size:88
Alignment explanation
Indices: 31045971--31046340 Score: 402
Period size: 89 Copynumber: 4.2 Consensus size: 88
31045961 AGTTACAAGT
* ** * * *
31045971 TACAAATCTTATTTCCCTAAAGTTGCAGTAAAATAGATTAAAGCTACAAATCTTATTTCCCTGAA
1 TACAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAGATACAAATCTTATCTCCCTGAA
* *
31046036 GTTACAGTAGAGA-AGATTGAAGC
66 GTTACAGTAGA-ATAGATTAAAAC
31046059 TACAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAGATAGCAAATCTTATCTCCCTGA
1 TACAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAGATA-CAAATCTTATCTCCCTGA
* * *
31046124 AGTTGCAGTAGAATAGATTGAAGC
65 AGTTACAGTAGAATAGATTAAAAC
* * * * * *
31046148 TATAAATCTTTTCTCCCTGAAGTTGCAGTGGAGCAGATTGAAGATAGCAAATCTTATCTCTCTGA
1 TACAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAGATA-CAAATCTTATCTCCCTGA
* * **
31046213 AGTTTCAATAGAGCAGATTAAAAC
65 AGTTACAGTAGAATAGATTAAAAC
* * * * * ** *
31046237 CATAAATCTTATCTCTCAAAAGTTGCAGTGGAGCAGATTAAAGCCATAAATCTTATCTCCCTGAA
1 TACAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAGATACAAATCTTATCTCCCTGAA
*
31046302 ATTACAGT-GAAGTAGATTAAAAC
66 GTTACAGTAGAA-TAGATTAAAAC
* *
31046325 TACGAATCTCATCTCC
1 TACAAATCTTATCTCC
31046341 TTGAGTTGTA
Statistics
Matches: 240, Mismatches: 39, Indels: 6
0.84 0.14 0.02
Matches are distributed among these distances:
87 2 0.01
88 85 0.35
89 153 0.64
ACGTcount: A:0.36, C:0.18, G:0.16, T:0.30
Consensus pattern (88 bp):
TACAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAGATACAAATCTTATCTCCCTGAA
GTTACAGTAGAATAGATTAAAAC
Found at i:31046149 original size:133 final size:132
Alignment explanation
Indices: 31045787--31046396 Score: 555
Period size: 133 Copynumber: 4.6 Consensus size: 132
31045777 GAAGTCATCG
* * * *
31045787 TAGCAAATCTTATCTCCCCAAAGTTGTAGTGGAGCAGATTGAAACTA-TAATCTTATCTCCTTGA
1 TAGCAAATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATT-AAAATACAAATCTTATCTCCCTGA
* * *
31045851 AGTTGCAGTGGAACAGATTGAAGCTACAAATCTTATCTCCCTGAAGTTGCAGTGGAGCAGATTGA
65 AGTTGCAGTAGAACAGATTAAAGCTACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGA
*
31045916 AGT
130 AGC
* * * * *
31045919 TAGCAAATCTTATTTTCCTGAAGTTGTAGTGGAACAGATTAAAGTTACAAGTTACAAATCTTATT
1 TAGCAAATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATT--A---A-AA--TACAAATCTTATC
* * * * * *
31045984 TCCCTAAAGTTGCAGTAAAATAGATTAAAGCTACAAATCTTATTTCCCTGAAGTTACAGTAGAGA
58 TCCCTGAAGTTGCAGTAGAACAGATTAAAGCTACAAATCTTATCTCCCTGAAGTTACAGTGGAGC
31046049 AGATTGAAGC
123 AGATTGAAGC
* *
31046059 TA-CAAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGATTAAAGATAGCAAATCTTATCTCCCTG
1 TAGCAAATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAA-ATA-CAAATCTTATCTCCCTG
* * * * *
31046123 AAGTTGCAGTAGAATAGATTGAAGCTATAAATCTTTTCTCCCTGAAGTTGCAGTGGAGCAGATTG
64 AAGTTGCAGTAGAACAGATTAAAGCTACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTG
*
31046188 AAGA
129 AAGC
* * * * * * * **
31046192 TAGCAAATCTTATCTCTCTGAAGTT-TCAATAGAGCAGATTAAAACCATAAATCTTATCTCTCAA
1 TAGCAAATCTTATCTCCCTAAAGTTGT-AGTGGAGCAGATTAAAA-TACAAATCTTATCTCCCTG
* * * * * * * *
31046256 AAGTTGCAGTGGAGCAGATTAAAGCCATAAATCTTATCTCCCTGAAATTACAGTGAAGTAGATTA
64 AAGTTGCAGTAGAACAGATTAAAGCTACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTG
*
31046321 AAAC
129 AAGC
* * ** * * * * * * *
31046325 TA-CGAATCTCATCT-CCTTGAGTTGTAGCGGAGTAAATTGAAATTACAATTCCTATATCCCTGA
1 TAGCAAATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATT-AAAATACAAATCTTATCTCCCTGA
31046388 AGTTGCAGT
65 AGTTGCAGT
31046397 GGGTTGGAAA
Statistics
Matches: 383, Mismatches: 80, Indels: 31
0.78 0.16 0.06
Matches are distributed among these distances:
131 35 0.09
132 51 0.13
133 151 0.39
134 36 0.09
136 1 0.00
137 2 0.01
139 33 0.09
140 74 0.19
ACGTcount: A:0.34, C:0.17, G:0.18, T:0.31
Consensus pattern (132 bp):
TAGCAAATCTTATCTCCCTAAAGTTGTAGTGGAGCAGATTAAAATACAAATCTTATCTCCCTGAA
GTTGCAGTAGAACAGATTAAAGCTACAAATCTTATCTCCCTGAAGTTACAGTGGAGCAGATTGAA
GC
Found at i:31048089 original size:41 final size:41
Alignment explanation
Indices: 31048044--31048212 Score: 139
Period size: 41 Copynumber: 4.1 Consensus size: 41
31048034 GCACAAACAT
* *
31048044 CCTTCGGAA-TCAAGCCCGATTCTTAGCACTGGCTCAAAAGC
1 CCTTCGGAACT-AAGCCCGATTATGAGCACTGGCTCAAAAGC
* * *
31048085 CCTTC-GAGACCAAGCTCCGATTA-GACCACTGGCTCAAAGGC
1 CCTTCGGA-ACTAAGC-CCGATTATGAGCACTGGCTCAAAAGC
** * * **
31048126 CCTTCGGAACTAAGTTCGGTTATGA-TACTGGCTCTGAAGC
1 CCTTCGGAACTAAGCCCGATTATGAGCACTGGCTCAAAAGC
* ** * *
31048166 CCTTCGAAACTAAGTTCGGTTATTAGCACTGGCTCAAAAGC
1 CCTTCGGAACTAAGCCCGATTATGAGCACTGGCTCAAAAGC
31048207 CCTTCG
1 CCTTCG
31048213 AGACCAAGCT
Statistics
Matches: 104, Mismatches: 18, Indels: 12
0.78 0.13 0.09
Matches are distributed among these distances:
40 41 0.39
41 55 0.53
42 8 0.08
ACGTcount: A:0.25, C:0.29, G:0.21, T:0.24
Consensus pattern (41 bp):
CCTTCGGAACTAAGCCCGATTATGAGCACTGGCTCAAAAGC
Found at i:31048168 original size:40 final size:41
Alignment explanation
Indices: 31048068--31048213 Score: 170
Period size: 41 Copynumber: 3.6 Consensus size: 41
31048058 CCCGATTCTT
* * * *
31048068 AGCACTGGCTCAAAAGCCCTTCGAGACCAAGCTCCGATTA-G
1 AGCACTGGCTCAAAAGCCCTTCGAAACTAAG-TTCGGTTATG
* * *
31048109 ACCACTGGCTCAAAGGCCCTTCGGAACTAAGTTCGGTTATG
1 AGCACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATG
* ** *
31048150 A-TACTGGCTCTGAAGCCCTTCGAAACTAAGTTCGGTTATT
1 AGCACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATG
31048190 AGCACTGGCTCAAAAGCCCTTCGA
1 AGCACTGGCTCAAAAGCCCTTCGA
31048214 GACCAAGCTC
Statistics
Matches: 87, Mismatches: 16, Indels: 4
0.81 0.15 0.04
Matches are distributed among these distances:
40 40 0.46
41 47 0.54
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
AGCACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTATG
Found at i:31056270 original size:41 final size:41
Alignment explanation
Indices: 31056225--31056393 Score: 157
Period size: 41 Copynumber: 4.1 Consensus size: 41
31056215 GCACAAACAT
* *
31056225 CCTTCGGAA-TCAAGCCCGATTCTTAGCACTGGCTCAAAAGC
1 CCTTCGGAACT-AAGCCCGATTATGAGCACTGGCTCAAAAGC
* * * *
31056266 CCTTC-GAGACCAAGCTCGGATTA-GACCACTGGCTCAAAGGC
1 CCTTCGGA-ACTAAGC-CCGATTATGAGCACTGGCTCAAAAGC
* * *
31056307 CCTTCGGAACTAAGTCCGGTTATGA-CACTGGCTCTAAAGC
1 CCTTCGGAACTAAGCCCGATTATGAGCACTGGCTCAAAAGC
* ** * *
31056347 CCTTCGAAACTAAGTTCGGTTATTAGCACTGGCTCAAAAGC
1 CCTTCGGAACTAAGCCCGATTATGAGCACTGGCTCAAAAGC
31056388 CCTTCG
1 CCTTCG
31056394 AGACCAAGCT
Statistics
Matches: 106, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
40 42 0.40
41 57 0.54
42 7 0.07
ACGTcount: A:0.26, C:0.30, G:0.21, T:0.23
Consensus pattern (41 bp):
CCTTCGGAACTAAGCCCGATTATGAGCACTGGCTCAAAAGC
Found at i:31056394 original size:41 final size:41
Alignment explanation
Indices: 31056247--31056394 Score: 185
Period size: 41 Copynumber: 3.6 Consensus size: 41
31056237 AGCCCGATTC
* * *
31056247 TTAGCACTGGCTCAAAAGCCCTTCGAGACCAAGCTCGG--A
1 TTAGCACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTA
* * *
31056286 TTAGACCACTGGCTCAAAGGCCCTTCGGAACTAAGTCCGGTTA
1 TTAG--CACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTA
* *
31056329 TGA-CACTGGCTCTAAAGCCCTTCGAAACTAAGTTCGGTTA
1 TTAGCACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTA
31056369 TTAGCACTGGCTCAAAAGCCCTTCGA
1 TTAGCACTGGCTCAAAAGCCCTTCGA
31056395 GACCAAGCTC
Statistics
Matches: 91, Mismatches: 13, Indels: 8
0.81 0.12 0.07
Matches are distributed among these distances:
39 4 0.04
40 35 0.38
41 49 0.54
43 3 0.03
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.23
Consensus pattern (41 bp):
TTAGCACTGGCTCAAAAGCCCTTCGAAACTAAGTTCGGTTA
Found at i:31064302 original size:41 final size:40
Alignment explanation
Indices: 31064257--31064424 Score: 133
Period size: 41 Copynumber: 4.1 Consensus size: 40
31064247 CCTTCGGAAT
*
31064257 CAAGCCCGATTCCTAGCACTGGCTCAAAAGCCCTTCGAGAC
1 CAAGCCCGATT-ATAGCACTGGCTCAAAAGCCCTTCGAGAC
* * * * *
31064298 CAAGCTCGGATTAGACCACTGGCTCAAAGGCCTTTCG-GAAC
1 CAAGC-CCGATTATAGCACTGGCTCAAAAGCCCTTCGAG-AC
* * * * * *
31064339 TAAGTCTGGTTAT-GACACTGGCTCTAAAGCCCTTCGAAAC
1 CAAGCCCGATTATAG-CACTGGCTCAAAAGCCCTTCGAGAC
* ** *
31064379 TAAGTTCGGTTATTAGCACTGGCTCAAAAGCCCTTCGAGAC
1 CAAGCCCGATTA-TAGCACTGGCTCAAAAGCCCTTCGAGAC
31064420 CAAGC
1 CAAGC
31064425 TCGGATTTAG
Statistics
Matches: 99, Mismatches: 22, Indels: 12
0.74 0.17 0.09
Matches are distributed among these distances:
40 36 0.36
41 57 0.58
42 6 0.06
ACGTcount: A:0.27, C:0.29, G:0.21, T:0.22
Consensus pattern (40 bp):
CAAGCCCGATTATAGCACTGGCTCAAAAGCCCTTCGAGAC
Found at i:31064380 original size:40 final size:42
Alignment explanation
Indices: 31064273--31064416 Score: 172
Period size: 41 Copynumber: 3.5 Consensus size: 42
31064263 CGATTCCTAG
* *
31064273 CACTGGCTCAAAAGCCCTTCGAGACCAAG-CTCGGATTA-GAC
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTCTCGG-TTATGAC
* * *
31064314 CACTGGCTCAAAGGCCTTTCGGAACTAAGTCT-GGTTATGA-
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTCTCGGTTATGAC
* * *
31064354 CACTGGCTCTAAAGCCCTTCGAAACTAAGT-TCGGTTATTAG
1 CACTGGCTCAAAAGCCCTTCGAAACTAAGTCTCGGTTATGAC
31064395 CACTGGCTCAAAAGCCCTTCGA
1 CACTGGCTCAAAAGCCCTTCGA
31064417 GACCAAGCTC
Statistics
Matches: 88, Mismatches: 11, Indels: 8
0.82 0.10 0.07
Matches are distributed among these distances:
39 1 0.01
40 36 0.41
41 49 0.56
42 2 0.02
ACGTcount: A:0.27, C:0.28, G:0.22, T:0.24
Consensus pattern (42 bp):
CACTGGCTCAAAAGCCCTTCGAAACTAAGTCTCGGTTATGAC
Found at i:31067221 original size:19 final size:21
Alignment explanation
Indices: 31067191--31067233 Score: 63
Period size: 20 Copynumber: 2.1 Consensus size: 21
31067181 CTGTCTAATT
31067191 TTTTTTATTTTTATGTA-TTA
1 TTTTTTATTTTTATGTATTTA
*
31067211 TTTTTTA-TTTTATTTATTTA
1 TTTTTTATTTTTATGTATTTA
31067231 TTT
1 TTT
31067234 ACTTGTTATT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.19, C:0.00, G:0.02, T:0.79
Consensus pattern (21 bp):
TTTTTTATTTTTATGTATTTA
Found at i:31072007 original size:50 final size:50
Alignment explanation
Indices: 31071949--31072047 Score: 180
Period size: 50 Copynumber: 2.0 Consensus size: 50
31071939 TGAATCAGAA
*
31071949 CGACTTGGTTGGTCAAATCAATTGGACTGAGAATTGATTAATTATTAGTT
1 CGACTTGGTTGGTCAAATCAATTGGACTGAGAATTGATTAAGTATTAGTT
*
31071999 CGACTTGGTTGGTCAAATCAATTGGGCTGAGAATTGATTAAGTATTAGT
1 CGACTTGGTTGGTCAAATCAATTGGACTGAGAATTGATTAAGTATTAGT
31072048 CCGAAAAAAG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
50 47 1.00
ACGTcount: A:0.29, C:0.10, G:0.24, T:0.36
Consensus pattern (50 bp):
CGACTTGGTTGGTCAAATCAATTGGACTGAGAATTGATTAAGTATTAGTT
Found at i:31076833 original size:12 final size:11
Alignment explanation
Indices: 31076812--31076851 Score: 62
Period size: 12 Copynumber: 3.5 Consensus size: 11
31076802 TTAATACATG
31076812 ATATAAAAATA
1 ATATAAAAATA
31076823 ATATCAAAAATA
1 ATAT-AAAAATA
31076835 ATATGAAAAATA
1 ATAT-AAAAATA
31076847 ATATA
1 ATATA
31076852 TTTTAATTAT
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
11 5 0.19
12 22 0.81
ACGTcount: A:0.68, C:0.03, G:0.03, T:0.28
Consensus pattern (11 bp):
ATATAAAAATA
Found at i:31076876 original size:18 final size:16
Alignment explanation
Indices: 31076844--31076889 Score: 60
Period size: 15 Copynumber: 3.0 Consensus size: 16
31076834 AATATGAAAA
31076844 ATAATATATTTTAATT
1 ATAATATATTTTAATT
*
31076860 ATAATATA-TTTAATA
1 ATAATATATTTTAATT
*
31076875 ATAAT-TATGTTAATT
1 ATAATATATTTTAATT
31076890 TATATTTTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
14 2 0.08
15 16 0.62
16 8 0.31
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATAATATATTTTAATT
Found at i:31076971 original size:37 final size:39
Alignment explanation
Indices: 31076923--31077209 Score: 112
Period size: 38 Copynumber: 7.3 Consensus size: 39
31076913 ATTATTTGAG
31076923 TAAATTCATATAAGAATAT-TAAT-TATTAAGAATTTTAT
1 TAAATT-ATATAAGAATATATAATATATTAAGAATTTTAT
** * *
31076961 TAAATTATATATTTTAAT-TATAATATATTTAATAATAATTAT
1 TAAATTATATA--AGAATATATAATATA-TTAAGAAT-TTTAT
* *** * * * *
31077003 GTTAATT-TATATTTATAGTATCATATATTATG-ATTTCAG
1 -TAAATTATATAAGAATA-TATAATATATTAAGAATTTTAT
*
31077042 TAAATTCATATAAGAATAT-T-ATTTATTAAGAATTTTAT
1 TAAATT-ATATAAGAATATATAATATATTAAGAATTTTAT
** * *
31077080 TAAATTATATATTTTAAT-TATAATATATTTAATAATAATTAT
1 TAAATTATATA--AGAATATATAATATA-TTAAGAAT-TTTAT
* *** * * * *
31077122 GTTAATT-TATATTTTATAGTATCATATATTATG-ATTTCAG
1 -TAAATTATATA-AGAATA-TATAATATATTAAGAATTTTAT
*
31077162 TAAATTCATATAAGAATAT-T-ATTTATTAAGAATTTTAT
1 TAAATT-ATATAAGAATATATAATATATTAAGAATTTTAT
31077200 TAAATTATAT
1 TAAATTATAT
31077210 TTTTTAATTA
Statistics
Matches: 184, Mismatches: 41, Indels: 49
0.67 0.15 0.18
Matches are distributed among these distances:
37 30 0.16
38 37 0.20
39 20 0.11
40 24 0.13
41 28 0.15
42 27 0.15
43 18 0.10
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (39 bp):
TAAATTATATAAGAATATATAATATATTAAGAATTTTAT
Found at i:31076993 original size:15 final size:15
Alignment explanation
Indices: 31076958--31077009 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
31076948 TTAAGAATTT
*
31076958 TATTAAATTAT-ATA
1 TATTTAATTATAATA
31076972 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
31076986 TATTTAATAATAAT-
1 TATTTAATTATAATA
31077000 TATGTTAATT
1 TAT-TTAATT
31077010 TATATTTATA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:31077112 original size:15 final size:15
Alignment explanation
Indices: 31077077--31077128 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
31077067 TTAAGAATTT
*
31077077 TATTAAATTAT-ATA
1 TATTTAATTATAATA
31077091 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
31077105 TATTTAATAATAAT-
1 TATTTAATTATAATA
31077119 TATGTTAATT
1 TAT-TTAATT
31077129 TATATTTTAT
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:31077205 original size:120 final size:120
Alignment explanation
Indices: 31076842--31077244 Score: 754
Period size: 120 Copynumber: 3.4 Consensus size: 120
31076832 ATAATATGAA
*
31076842 AAATAATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCA
1 AAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCA
* * *
31076907 TATATTATTATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATT
66 TATATTATGATTTCAGTAAATTCATATAAGAATATTATTTATTAAGAATTTTATT
31076962 AAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATA-TTTATAGTATCA
1 AAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCA
31077026 TATATTATGATTTCAGTAAATTCATATAAGAATATTATTTATTAAGAATTTTATT
66 TATATTATGATTTCAGTAAATTCATATAAGAATATTATTTATTAAGAATTTTATT
31077081 AAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCA
1 AAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCA
31077146 TATATTATGATTTCAGTAAATTCATATAAGAATATTATTTATTAAGAATTTTATT
66 TATATTATGATTTCAGTAAATTCATATAAGAATATTATTTATTAAGAATTTTATT
*
31077201 AAATTATATTTTTTAATTATAATATATTTAATAATAATTATGTT
1 AAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT
31077245 TAAATATGAT
Statistics
Matches: 277, Mismatches: 5, Indels: 2
0.98 0.02 0.01
Matches are distributed among these distances:
119 116 0.42
120 161 0.58
ACGTcount: A:0.42, C:0.02, G:0.05, T:0.51
Consensus pattern (120 bp):
AAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAATTTATATTTTATAGTATCA
TATATTATGATTTCAGTAAATTCATATAAGAATATTATTTATTAAGAATTTTATT
Found at i:31077482 original size:16 final size:16
Alignment explanation
Indices: 31077461--31077530 Score: 86
Period size: 16 Copynumber: 4.4 Consensus size: 16
31077451 TTGATTTGCT
*
31077461 ATTACACCTCTAATCC
1 ATTACACCTCTATTCC
*
31077477 ATTACACTTCTATTCC
1 ATTACACCTCTATTCC
* *
31077493 ATTACGCCTTTATTCC
1 ATTACACCTCTATTCC
*
31077509 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
*
31077525 AATACA
1 ATTACA
31077531 GCGAACCAAA
Statistics
Matches: 46, Mismatches: 8, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 46 1.00
ACGTcount: A:0.27, C:0.33, G:0.03, T:0.37
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:31077799 original size:17 final size:16
Alignment explanation
Indices: 31077773--31077811 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
31077763 AAAATTTTAA
31077773 TAAAAATTTCAGAAAAT
1 TAAAAATTTCA-AAAAT
*
31077790 TAAAATTTTCAAAAAT
1 TAAAAATTTCAAAAAT
31077806 TAAAAA
1 TAAAAA
31077812 AAAAAACTTC
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
16 10 0.50
17 10 0.50
ACGTcount: A:0.62, C:0.05, G:0.03, T:0.31
Consensus pattern (16 bp):
TAAAAATTTCAAAAAT
Found at i:31078811 original size:35 final size:35
Alignment explanation
Indices: 31078763--31078839 Score: 102
Period size: 35 Copynumber: 2.2 Consensus size: 35
31078753 TCACAGTCCC
31078763 AATACCTCACAATACAATCAACAAACTC-TCTAAAG
1 AATACCTCACAATACAATCAACAAACTCTTC-AAAG
* * *
31078798 AATACCTCGCAATATAATCAATAAACTCTTCAAAG
1 AATACCTCACAATACAATCAACAAACTCTTCAAAG
*
31078833 ATTACCT
1 AATACCT
31078840 AAAAGAGTGT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
35 35 0.95
36 2 0.05
ACGTcount: A:0.45, C:0.26, G:0.04, T:0.25
Consensus pattern (35 bp):
AATACCTCACAATACAATCAACAAACTCTTCAAAG
Found at i:31080926 original size:20 final size:21
Alignment explanation
Indices: 31080901--31080939 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
31080891 ATTATTTAAT
31080901 AATATT-TA-TAAGATTTTTAC
1 AATATTATACTAA-ATTTTTAC
31080921 AATATTATACTAAATTTTT
1 AATATTATACTAAATTTTT
31080940 GTCTAATAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
20 6 0.35
21 8 0.47
22 3 0.18
ACGTcount: A:0.41, C:0.05, G:0.03, T:0.51
Consensus pattern (21 bp):
AATATTATACTAAATTTTTAC
Found at i:31082378 original size:80 final size:80
Alignment explanation
Indices: 31082245--31082492 Score: 343
Period size: 80 Copynumber: 3.1 Consensus size: 80
31082235 TGTATCTATT
* * * * *
31082245 TGCACTTCGGTGCCTCTGTTTGCACTACGATGCCTCTATTTGCACTTTGGTGCCTCTGTATGGAC
1 TGCACTTTGGTGCCTCTGTTTGCACTTCGATGCCTCTGTTTGCACTTCGGTGCCTCTGTATGCAC
*
31082310 TTCAATGCCTCTGTA
66 TTCAGTGCCTCTGTA
* *
31082325 TGCACTTTGGTGCCTCTGTTTGTACTTCGATGCCTCTGTTTGTACTTCGGTGCCTCTGTATGCAC
1 TGCACTTTGGTGCCTCTGTTTGCACTTCGATGCCTCTGTTTGCACTTCGGTGCCTCTGTATGCAC
*
31082390 TTCAGTGCCTCTGTT
66 TTCAGTGCCTCTGTA
* * * ** * *
31082405 TGCACTTTGGTGCCTCTTTTTGCATTTCGATGCCTCTGTTTGCACTTCAGCACCTCTATTTGCAC
1 TGCACTTTGGTGCCTCTGTTTGCACTTCGATGCCTCTGTTTGCACTTCGGTGCCTCTGTATGCAC
*
31082470 TTCAGTGCCTCTATA
66 TTCAGTGCCTCTGTA
31082485 TGCACTTT
1 TGCACTTT
31082493 AATGCCTTTG
Statistics
Matches: 148, Mismatches: 20, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
80 148 1.00
ACGTcount: A:0.12, C:0.27, G:0.20, T:0.41
Consensus pattern (80 bp):
TGCACTTTGGTGCCTCTGTTTGCACTTCGATGCCTCTGTTTGCACTTCGGTGCCTCTGTATGCAC
TTCAGTGCCTCTGTA
Found at i:31082499 original size:20 final size:20
Alignment explanation
Indices: 31082243--31082491 Score: 264
Period size: 20 Copynumber: 12.4 Consensus size: 20
31082233 AATGTATCTA
31082243 TTTGCACTTCGGTGCCTCTG
1 TTTGCACTTCGGTGCCTCTG
* * *
31082263 TTTGCACTACGATGCCTCTA
1 TTTGCACTTCGGTGCCTCTG
*
31082283 TTTGCACTTTGGTGCCTCTG
1 TTTGCACTTCGGTGCCTCTG
* * **
31082303 TATGGACTTCAATGCCTCTG
1 TTTGCACTTCGGTGCCTCTG
* *
31082323 TATGCACTTTGGTGCCTCTG
1 TTTGCACTTCGGTGCCTCTG
* *
31082343 TTTGTACTTCGATGCCTCTG
1 TTTGCACTTCGGTGCCTCTG
*
31082363 TTTGTACTTCGGTGCCTCTG
1 TTTGCACTTCGGTGCCTCTG
* *
31082383 TATGCACTTCAGTGCCTCTG
1 TTTGCACTTCGGTGCCTCTG
* *
31082403 TTTGCACTTTGGTGCCTCTT
1 TTTGCACTTCGGTGCCTCTG
* *
31082423 TTTGCATTTCGATGCCTCTG
1 TTTGCACTTCGGTGCCTCTG
* ** *
31082443 TTTGCACTTCAGCACCTCTA
1 TTTGCACTTCGGTGCCTCTG
* *
31082463 TTTGCACTTCAGTGCCTCTA
1 TTTGCACTTCGGTGCCTCTG
*
31082483 TATGCACTT
1 TTTGCACTT
31082492 TAATGCCTTT
Statistics
Matches: 188, Mismatches: 41, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 188 1.00
ACGTcount: A:0.12, C:0.27, G:0.20, T:0.41
Consensus pattern (20 bp):
TTTGCACTTCGGTGCCTCTG
Found at i:31099026 original size:40 final size:40
Alignment explanation
Indices: 31098971--31099051 Score: 162
Period size: 40 Copynumber: 2.0 Consensus size: 40
31098961 ATTCGTATAT
31098971 TGATCCAATTATTATTCTTTCTTCTTTTGAAAGGAATTAC
1 TGATCCAATTATTATTCTTTCTTCTTTTGAAAGGAATTAC
31099011 TGATCCAATTATTATTCTTTCTTCTTTTGAAAGGAATTAC
1 TGATCCAATTATTATTCTTTCTTCTTTTGAAAGGAATTAC
31099051 T
1 T
31099052 ATGGTTCTCT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 41 1.00
ACGTcount: A:0.27, C:0.15, G:0.10, T:0.48
Consensus pattern (40 bp):
TGATCCAATTATTATTCTTTCTTCTTTTGAAAGGAATTAC
Found at i:31109762 original size:43 final size:43
Alignment explanation
Indices: 31109688--31109851 Score: 172
Period size: 43 Copynumber: 3.8 Consensus size: 43
31109678 TATGCTATCA
* * * * * *
31109688 CATATCGATGTCACTGTCCTAGACAGGGTCTTATACGA-AATCG
1 CATAACGATGCCAATGTCCCAGACATGGTCTTACAC-ATAATCG
*
31109731 -ATTAACGATGCCAATGTCCCAGACATTGTCTTACACATAATCG
1 CA-TAACGATGCCAATGTCCCAGACATGGTCTTACACATAATCG
* *
31109774 CATAATGATGCCGATGTCCCAGACATGGTCTTACACATAATCG
1 CATAACGATGCCAATGTCCCAGACATGGTCTTACACATAATCG
* * *
31109817 CA-ATACAATGCCAATGTTCCAGACATGGTATTACA
1 CATA-ACGATGCCAATGTCCCAGACATGGTCTTACA
31109852 TGCAATCACA
Statistics
Matches: 102, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
42 3 0.03
43 98 0.96
44 1 0.01
ACGTcount: A:0.32, C:0.24, G:0.17, T:0.27
Consensus pattern (43 bp):
CATAACGATGCCAATGTCCCAGACATGGTCTTACACATAATCG
Found at i:31111929 original size:21 final size:20
Alignment explanation
Indices: 31111899--31111937 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
31111889 AATGCAAACA
31111899 AGGGCACACGCCCATGTGGG
1 AGGGCACACGCCCATGTGGG
*
31111919 AGGGCGACACGCCCGTGTG
1 AGGGC-ACACGCCCATGTG
31111938 TCCTTTTAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.18, C:0.31, G:0.41, T:0.10
Consensus pattern (20 bp):
AGGGCACACGCCCATGTGGG
Found at i:31112813 original size:27 final size:27
Alignment explanation
Indices: 31112783--31112837 Score: 101
Period size: 27 Copynumber: 2.0 Consensus size: 27
31112773 TTAGGTGATA
31112783 GTGTAATCAATGCTTTCGACGTCCCTT
1 GTGTAATCAATGCTTTCGACGTCCCTT
*
31112810 GTGTGATCAATGCTTTCGACGTCCCTT
1 GTGTAATCAATGCTTTCGACGTCCCTT
31112837 G
1 G
31112838 ATTCCCCAGC
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.16, C:0.25, G:0.22, T:0.36
Consensus pattern (27 bp):
GTGTAATCAATGCTTTCGACGTCCCTT
Found at i:31113304 original size:48 final size:48
Alignment explanation
Indices: 31113195--31113377 Score: 179
Period size: 48 Copynumber: 3.8 Consensus size: 48
31113185 AAGGTAAGAT
** * * ** *
31113195 GTCGATGTTATGTCCCAGACATGGTCTTACACTAGCTCTCATA-AAGCG
1 GTCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCAAATATAA-AG
* * * **
31113243 GTATCGATACCATGTTCCAAACATTGTCTCACACTAGCTCAAATATCGAG
1 G--TCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCAAATATAAAG
* ** *
31113293 GTCGATGCCATGTCCCAAACATGGTCTTACACTAGCTCTCATATAAAT
1 GTCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCAAATATAAAG
*
31113341 GTCGATGCCATGTTCCAAACATGGTCTTACATTAGCT
1 GTCGATGCCATGTTCCAAACATGGTCTTACACTAGCT
31113378 TACATAACCC
Statistics
Matches: 109, Mismatches: 23, Indels: 6
0.79 0.17 0.04
Matches are distributed among these distances:
48 74 0.68
50 35 0.32
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.30
Consensus pattern (48 bp):
GTCGATGCCATGTTCCAAACATGGTCTTACACTAGCTCAAATATAAAG
Found at i:31117753 original size:47 final size:47
Alignment explanation
Indices: 31117702--31118084 Score: 651
Period size: 47 Copynumber: 8.1 Consensus size: 47
31117692 TTAGGATTCT
* * *
31117702 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCG
31117749 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
31117796 ATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
31117843 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAAGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
31117892 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
31117939 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCG
*
31117988 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
*
31118035 ATGTGATGAATGTGAAAGTGTATACATGTGATAAGGCCTAATGGCCG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
31118082 ATG
1 ATG
31118085 CCTAATGGCC
Statistics
Matches: 321, Mismatches: 10, Indels: 10
0.94 0.03 0.03
Matches are distributed among these distances:
46 1 0.00
47 227 0.71
49 93 0.29
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCG
Found at i:31117812 original size:143 final size:140
Alignment explanation
Indices: 31117702--31118084 Score: 501
Period size: 143 Copynumber: 2.7 Consensus size: 140
31117692 TTAGGATTCT
* * *
31117702 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
* *
31117766 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAT-GTGTATATATGTGATAA
65 GTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAATAGTG-ATATATAT-ATTA
* *
31117830 GGCCTAATGG--CCG
128 TG-ATAA-GGATCCG
*
31117843 ATGTGATGAATGTGAAAGTGTATATATATGTGATAAGGCCTAAAGGCCGATGTGATGAATGTGAA
1 ATGTGATGAATGTGAAAGTG--TATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA
*
31117908 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAA-AGTG-TATATATA-TGT
64 AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAATAGTGATATATATATTAT
31117970 GATAAGGCCTAATGGCCG
129 GATAAGG----AT--CCG
*
31117988 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
31118053 TGTATACATGTGATAAGGCCTAATGGCCGATG
66 TGTATATATGTGATAAGGCCTAATGGCCGATG
31118085 CCTAATGGCC
Statistics
Matches: 218, Mismatches: 12, Indels: 22
0.87 0.05 0.09
Matches are distributed among these distances:
137 2 0.01
138 3 0.01
139 1 0.00
140 2 0.01
141 23 0.11
143 164 0.75
145 23 0.11
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.29
Consensus pattern (140 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAATAGTGATATATATATTATGA
TAAGGATCCG
Found at i:31117917 original size:96 final size:96
Alignment explanation
Indices: 31117702--31118177 Score: 665
Period size: 96 Copynumber: 4.9 Consensus size: 96
31117692 TTAGGATTCT
* * *
31117702 ATGTGATGGATGTGAACA-TGCATATATGAGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
1 ATGTGATGAATGTGAA-AGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAA
31117766 GTG--TATATATGTGATAAGGCCTAATGGCCG
65 GTGTATATATATGTGATAAGGCCTAATGGCCG
*
31117796 ATGTGATGAATGTGAATGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
*
31117861 TGTATATATATGTGATAAGGCCTAAAGGCCG
66 TGTATATATATGTGATAAGGCCTAATGGCCG
31117892 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
31117957 TGTATATATATGTGATAAGGCCTAATGGCCG
66 TGTATATATATGTGATAAGGCCTAATGGCCG
*
31117988 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
* * *
31118053 TGTATACATGTGATAAGGCCTAATGGCCGATGCCTAATGGCCG
66 TGTATATATATG-T---G-ATAA-----G--GCCTAATGGCCG
* * * * * *
31118096 ATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGATGGATGTGAAAG
1 ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
31118161 TGTATA-A-ATGTGATAAG
66 TGTATATATATGTGATAAG
31118178 TCCCAAAGGG
Statistics
Matches: 347, Mismatches: 20, Indels: 28
0.88 0.05 0.07
Matches are distributed among these distances:
94 62 0.18
96 195 0.56
97 1 0.00
100 1 0.00
101 6 0.02
102 1 0.00
105 1 0.00
106 3 0.01
107 1 0.00
108 76 0.22
ACGTcount: A:0.32, C:0.09, G:0.30, T:0.29
Consensus pattern (96 bp):
ATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAG
TGTATATATATGTGATAAGGCCTAATGGCCG
Found at i:31118089 original size:14 final size:14
Alignment explanation
Indices: 31118070--31118098 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
31118060 ATGTGATAAG
31118070 GCCTAATGGCCGAT
1 GCCTAATGGCCGAT
31118084 GCCTAATGGCCGAT
1 GCCTAATGGCCGAT
31118098 G
1 G
31118099 TGATGAATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.21, C:0.28, G:0.31, T:0.21
Consensus pattern (14 bp):
GCCTAATGGCCGAT
Found at i:31118102 original size:108 final size:108
Alignment explanation
Indices: 31117976--31118177 Score: 332
Period size: 108 Copynumber: 1.9 Consensus size: 108
31117966 ATGTGATAAG
* * *
31117976 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGA
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATAGCCAACGTGA
*
31118041 TGAATGTGAAAGTGTATACATGTGATAAGGCCTAATGGCCGAT
66 TGAATGTGAAAGTGTATAAATGTGATAAGGCCTAATGGCCGAT
* * *
31118084 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCCAACGTGA
1 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATAGCCAACGTGA
*
31118149 TGGATGTGAAAGTGTATAAATGTGATAAG
66 TGAATGTGAAAGTGTATAAATGTGATAAG
31118178 TCCCAAAGGG
Statistics
Matches: 86, Mismatches: 8, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
108 86 1.00
ACGTcount: A:0.31, C:0.11, G:0.31, T:0.27
Consensus pattern (108 bp):
GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCGAATAGCCAACGTGA
TGAATGTGAAAGTGTATAAATGTGATAAGGCCTAATGGCCGAT
Found at i:31118141 original size:61 final size:61
Alignment explanation
Indices: 31118023--31118141 Score: 193
Period size: 61 Copynumber: 2.0 Consensus size: 61
31118013 ATGTGATAAG
*
31118023 GCCTAATAGCCGATGTGATGAATGTGAAAGTGTATACATGTGATAAGGCCTAATGGCCGAT
1 GCCTAATAGCCGATGTGATGAATGTGAAAGTGTATACATGTGATAAGGCCGAATGGCCGAT
* * * *
31118084 GCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAGGGCCGAGTGGCC
1 GCCTAATAGCCGATGTGATGAATGTGAAAGTGTATACATGTGATAAGGCCGAATGGCC
31118142 AACGTGATGG
Statistics
Matches: 53, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
61 53 1.00
ACGTcount: A:0.29, C:0.14, G:0.31, T:0.26
Consensus pattern (61 bp):
GCCTAATAGCCGATGTGATGAATGTGAAAGTGTATACATGTGATAAGGCCGAATGGCCGAT
Found at i:31120193 original size:38 final size:38
Alignment explanation
Indices: 31120142--31120220 Score: 149
Period size: 38 Copynumber: 2.1 Consensus size: 38
31120132 TTTAGTCACT
31120142 TTTGTATCAAATACATAAGCAAAATAAACTTCACAACC
1 TTTGTATCAAATACATAAGCAAAATAAACTTCACAACC
*
31120180 TTTGTATCAAATACATGAGCAAAATAAACTTCACAACC
1 TTTGTATCAAATACATAAGCAAAATAAACTTCACAACC
31120218 TTT
1 TTT
31120221 CCTCACATAT
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
38 40 1.00
ACGTcount: A:0.44, C:0.20, G:0.06, T:0.29
Consensus pattern (38 bp):
TTTGTATCAAATACATAAGCAAAATAAACTTCACAACC
Found at i:31123398 original size:27 final size:27
Alignment explanation
Indices: 31123368--31123569 Score: 199
Period size: 27 Copynumber: 7.4 Consensus size: 27
31123358 TTAAGTCCGT
* *
31123368 ACACTCAGTGCTATATAATCAACTCGC
1 ACACTTAGTGCTACATAATCAACTCGC
*
31123395 ACACTTAGTGCCACATAATCAAACTCGC
1 ACACTTAGTGCTACATAATC-AACTCGC
*
31123423 ACACTTAGTGCTACATAGTCAACTCGC
1 ACACTTAGTGCTACATAATCAACTCGC
** ** *
31123450 ACACTTAGTGCCGCATGGTCAATTCGC
1 ACACTTAGTGCTACATAATCAACTCGC
** **
31123477 ACACTTAGTGC-ATCATTTTCATTTCGC
1 ACACTTAGTGCTA-CATAATCAACTCGC
* ** *
31123504 ACACTTAGTGCAACATGGTCAAATCGC
1 ACACTTAGTGCTACATAATCAACTCGC
** *
31123531 ACACTTAGTGCTACATAGCCAAATCGC
1 ACACTTAGTGCTACATAATCAACTCGC
31123558 ACACTTAGTGCT
1 ACACTTAGTGCT
31123570 GTACAATTTA
Statistics
Matches: 152, Mismatches: 20, Indels: 6
0.85 0.11 0.03
Matches are distributed among these distances:
27 126 0.83
28 26 0.17
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.27
Consensus pattern (27 bp):
ACACTTAGTGCTACATAATCAACTCGC
Found at i:31123504 original size:54 final size:54
Alignment explanation
Indices: 31123368--31123568 Score: 251
Period size: 54 Copynumber: 3.7 Consensus size: 54
31123358 TTAAGTCCGT
* * * **
31123368 ACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCCACATAATCAAACTCGC
1 ACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATGGTCAAA-TCGC
* *
31123423 ACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATTCGC
1 ACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATGGTCAAATCGC
** ** *
31123477 ACACTTAGTGC-ATCATTTTCATTTCGCACACTTAGTGCAACATGGTCAAATCGC
1 ACACTTAGTGCTA-CATAGTCAACTCGCACACTTAGTGCCACATGGTCAAATCGC
* *
31123531 ACACTTAGTGCTACATAGCCAAATCGCACACTTAGTGC
1 ACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGC
31123569 TGTACAATTT
Statistics
Matches: 125, Mismatches: 19, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
53 1 0.01
54 80 0.64
55 44 0.35
ACGTcount: A:0.30, C:0.29, G:0.15, T:0.26
Consensus pattern (54 bp):
ACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATGGTCAAATCGC
Found at i:31123531 original size:81 final size:81
Alignment explanation
Indices: 31123419--31123568 Score: 228
Period size: 81 Copynumber: 1.9 Consensus size: 81
31123409 ATAATCAAAC
* * * * * *
31123419 TCGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATTCGCACACTTA
1 TCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCCACATAGCCAAATCGCACACTTA
31123484 GTGCATCATTTTCATT
66 GTGCATCATTTTCATT
* *
31123500 TCGCACACTTAGTGCAACATGGTCAAATCGCACACTTAGTGCTACATAGCCAAATCGCACACTTA
1 TCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCCACATAGCCAAATCGCACACTTA
31123565 GTGC
66 GTGC
31123569 TGTACAATTT
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 61 1.00
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (81 bp):
TCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCCACATAGCCAAATCGCACACTTA
GTGCATCATTTTCATT
Found at i:31131341 original size:27 final size:27
Alignment explanation
Indices: 31131311--31131515 Score: 205
Period size: 27 Copynumber: 7.6 Consensus size: 27
31131301 ATATTAAGTC
* *
31131311 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
*
31131338 CGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAATC-AACT
*
31131366 CGCACACTTAGTGCTACATAGTCAACT
1 CGCACACTTAGTGCTACATAATCAACT
** ** *
31131393 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
** **
31131420 CGCACACTTAGTGC-ATCATTTTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* ** *
31131447 CGCACACTTAGTGCAACATGGTCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
** *
31131474 CGCACACTTAGTGCTACATAGCCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
31131501 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
31131516 GTACAATTTA
Statistics
Matches: 155, Mismatches: 20, Indels: 6
0.86 0.11 0.03
Matches are distributed among these distances:
27 129 0.83
28 26 0.17
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:31131450 original size:54 final size:54
Alignment explanation
Indices: 31131311--31131514 Score: 257
Period size: 54 Copynumber: 3.8 Consensus size: 54
31131301 ATATTAAGTC
* * * **
31131311 CGCACACTCAGTGCTATATAATCAACTCGCACACTTAGTGCCACATAATCAAACT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATGGTCAAA-T
* *
31131366 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATGGTCAAAT
** ** *
31131420 CGCACACTTAGTGC-ATCATTTTCATTTCGCACACTTAGTGCAACATGGTCAAAT
1 CGCACACTTAGTGCTA-CATAGTCAACTCGCACACTTAGTGCCACATGGTCAAAT
* *
31131474 CGCACACTTAGTGCTACATAGCCAAATCGCACACTTAGTGC
1 CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGC
31131515 TGTACAATTT
Statistics
Matches: 128, Mismatches: 19, Indels: 5
0.84 0.12 0.03
Matches are distributed among these distances:
53 1 0.01
54 80 0.62
55 47 0.37
ACGTcount: A:0.29, C:0.29, G:0.15, T:0.26
Consensus pattern (54 bp):
CGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCACATGGTCAAAT
Found at i:31131480 original size:81 final size:81
Alignment explanation
Indices: 31131365--31131514 Score: 228
Period size: 81 Copynumber: 1.9 Consensus size: 81
31131355 ATAATCAAAC
* * * * * *
31131365 TCGCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCCGCATGGTCAATTCGCACACTTA
1 TCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCCACATAGCCAAATCGCACACTTA
31131430 GTGCATCATTTTCATT
66 GTGCATCATTTTCATT
* *
31131446 TCGCACACTTAGTGCAACATGGTCAAATCGCACACTTAGTGCTACATAGCCAAATCGCACACTTA
1 TCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCCACATAGCCAAATCGCACACTTA
31131511 GTGC
66 GTGC
31131515 TGTACAATTT
Statistics
Matches: 61, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 61 1.00
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (81 bp):
TCGCACACTTAGTGCAACATAGTCAAATCGCACACTTAGTGCCACATAGCCAAATCGCACACTTA
GTGCATCATTTTCATT
Found at i:31133499 original size:28 final size:28
Alignment explanation
Indices: 31133461--31133547 Score: 174
Period size: 28 Copynumber: 3.1 Consensus size: 28
31133451 TTATTACATT
31133461 CATATATAAAACCCATTCAAATCATTCA
1 CATATATAAAACCCATTCAAATCATTCA
31133489 CATATATAAAACCCATTCAAATCATTCA
1 CATATATAAAACCCATTCAAATCATTCA
31133517 CATATATAAAACCCATTCAAATCATTCA
1 CATATATAAAACCCATTCAAATCATTCA
31133545 CAT
1 CAT
31133548 TGTCCCTTAT
Statistics
Matches: 59, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 59 1.00
ACGTcount: A:0.46, C:0.25, G:0.00, T:0.29
Consensus pattern (28 bp):
CATATATAAAACCCATTCAAATCATTCA
Found at i:31137953 original size:18 final size:17
Alignment explanation
Indices: 31137930--31137970 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
31137920 TGGCCTAAAA
31137930 CCCACACACCCGTGTGGG
1 CCCACACACCCGT-TGGG
* *
31137948 CCCACACGCCCGTTTGG
1 CCCACACACCCGTTGGG
31137965 CCCACA
1 CCCACA
31137971 TGCCCAATTG
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 9 0.43
18 12 0.57
ACGTcount: A:0.17, C:0.49, G:0.22, T:0.12
Consensus pattern (17 bp):
CCCACACACCCGTTGGG
Found at i:31137968 original size:17 final size:18
Alignment explanation
Indices: 31137930--31137975 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 18
31137920 TGGCCTAAAA
*
31137930 CCCACACACCCGTGTGGG
1 CCCACACGCCCGTGTGGG
*
31137948 CCCACACGCCCGT-TTGG
1 CCCACACGCCCGTGTGGG
*
31137965 CCCACATGCCC
1 CCCACACGCCC
31137976 AATTGGCCTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
17 13 0.52
18 12 0.48
ACGTcount: A:0.15, C:0.50, G:0.22, T:0.13
Consensus pattern (18 bp):
CCCACACGCCCGTGTGGG
Found at i:31145742 original size:19 final size:19
Alignment explanation
Indices: 31145718--31145785 Score: 104
Period size: 19 Copynumber: 3.7 Consensus size: 19
31145708 AATCTTTAAG
31145718 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
31145737 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
* *
31145756 AATAT--AACCTTAGATAT
1 GATATGCAATCTTAGATAT
31145773 GATATGCAATCTT
1 GATATGCAATCTT
31145786 GAAGGTATGA
Statistics
Matches: 43, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
17 15 0.35
19 28 0.65
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:31145748 original size:36 final size:36
Alignment explanation
Indices: 31145708--31145794 Score: 90
Period size: 36 Copynumber: 2.4 Consensus size: 36
31145698 ATGGAAATAT
*
31145708 AATCTTTAAGGATATGCAATCTTAGATATGATATGC
1 AATCTTTAAGGATATGCAACCTTAGATATGATATGC
* **
31145744 AATC-TT-AGATATAATATAACCTTAGATATGATATGC
1 AATCTTTAAG-GAT-ATGCAACCTTAGATATGATATGC
*
31145780 AATCTTGAAGG-TATG
1 AATCTTTAAGGATATG
31145795 ATCTTGTAAT
Statistics
Matches: 40, Mismatches: 7, Indels: 9
0.71 0.12 0.16
Matches are distributed among these distances:
34 2 0.05
35 6 0.15
36 29 0.73
37 1 0.03
38 2 0.05
ACGTcount: A:0.38, C:0.10, G:0.16, T:0.36
Consensus pattern (36 bp):
AATCTTTAAGGATATGCAACCTTAGATATGATATGC
Found at i:31149681 original size:12 final size:12
Alignment explanation
Indices: 31149664--31149688 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
31149654 TAAAGTTATT
31149664 AAAAAGAGAAAG
1 AAAAAGAGAAAG
31149676 AAAAAGAGAAAG
1 AAAAAGAGAAAG
31149688 A
1 A
31149689 GAGAAGAGGG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
AAAAAGAGAAAG
Found at i:31152244 original size:8 final size:8
Alignment explanation
Indices: 31152227--31152268 Score: 52
Period size: 8 Copynumber: 5.2 Consensus size: 8
31152217 CTTCTATTTC
31152227 AAAA-AAA
1 AAAAGAAA
31152234 AAAAGAAA
1 AAAAGAAA
31152242 AAAA-ATATA
1 AAAAGA-A-A
31152251 AAAAGAAA
1 AAAAGAAA
31152259 AAAAGAAA
1 AAAAGAAA
31152267 AA
1 AA
31152269 TGGAGAGGCC
Statistics
Matches: 31, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
7 5 0.16
8 19 0.61
9 6 0.19
10 1 0.03
ACGTcount: A:0.88, C:0.00, G:0.07, T:0.05
Consensus pattern (8 bp):
AAAAGAAA
Found at i:31153593 original size:205 final size:202
Alignment explanation
Indices: 31153211--31153958 Score: 1202
Period size: 199 Copynumber: 3.7 Consensus size: 202
31153201 GCAGATCTAG
* *
31153211 CTGAAGCAAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAAGAACAAATCGAAGGCATAGCT
1 CTGAAGC-AGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCT
*
31153276 GATTTGGCTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
65 GATTTGGTTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
** *
31153341 AGAACAAATCGAAGTCTGGCATCTCCATTTCGACAGAGAGTAGATACATAGCAGATCTAACCTTC
130 AGAACAAATCGAAGTCTGGCATCTCCATTTCGATGGAGAGCAGATACATAGCAGATCTAACCTTC
*
31153406 AAATGTTTATA
195 ATATG---ATA
*
31153417 CTGAAGTAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
* * *
31153482 ATTTGGTTTTCACGTGCTTACGATGAAGCAAATCCAAGATGATTTGGCACCTCTGTATTGTTAGA
66 ATTTGGTTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
* * *
31153547 GAACAAATCAAAGTCTGGCATCTCTATTTTGATGGAGAGCAGATACATAGCAGATCTAACCTTCA
131 GAACAAATCGAAGTCTGGCATCTCCATTTCGATGGAGAGCAGATACATAGCAGATCTAACCTTCA
31153612 TATG--A
196 TATGATA
* *
31153617 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTATAATGAACAAATCGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
* * *
31153682 ATTTGGTTTTCGCGTGCTTACGTTGAAGCAAATCTAA-ATGATTTGGCATCTCTGTATTGTCAAA
66 ATTTGGTTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
31153746 GAACAAATCGAAGTCTGGCATCTCCATTTCGATGGAGAGCAGATACATAGCAGATCTAACCTTCA
131 GAACAAATCGAAGTCTGGCATCTCCATTTCGATGGAGAGCAGATACATAGCAGATCTAACCTTCA
31153811 TATGAT-
196 TATGATA
*
31153817 -TGAAGCAGATCCAAGATGGTTTGGCATCCTTATGCTTACAAGGAACAAATCGAAGACATAGCTG
1 CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
* * *
31153881 ATTTGGTTTTCGCGTGTTTAC-ACTGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTTAG
66 ATTTGGTTTTCACGTGCTTACGA-TGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAG
31153945 AGAACAAATCGAAG
130 AGAACAAATCGAAG
31153959 AAACAGATTT
Statistics
Matches: 505, Mismatches: 33, Indels: 14
0.91 0.06 0.03
Matches are distributed among these distances:
199 185 0.37
200 135 0.27
205 179 0.35
206 6 0.01
ACGTcount: A:0.31, C:0.18, G:0.21, T:0.29
Consensus pattern (202 bp):
CTGAAGCAGATCCAAGATGGTTTGGCATCCTTGTGCTTACAAGGAACAAATCGAAGACATAGCTG
ATTTGGTTTTCACGTGCTTACGATGAAGCAAATCTAAGATGATTTGGCATCTCTGTATTGTCAGA
GAACAAATCGAAGTCTGGCATCTCCATTTCGATGGAGAGCAGATACATAGCAGATCTAACCTTCA
TATGATA
Found at i:31154142 original size:87 final size:86
Alignment explanation
Indices: 31154028--31154192 Score: 217
Period size: 87 Copynumber: 1.9 Consensus size: 86
31154018 TCATAAGTTT
* *
31154028 ACAAGAAGCAGATTAAAGACATAGCAGATCTGACCTTCA-GATGATTTTA-CTGAAGCAGATCTA
1 ACAAGAAGCAAATTAAAGACACAGCAGATCTGACCTTCACG-TG--TTTACCTGAAGCAGATCTA
31154091 AGATGATTTGGCATCCTTGTGTTC
63 AGATGATTTGGCATCCTTGTGTTC
* * * * *
31154115 ACAAGGAGCAAATTGAAGACACAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGATCTAAG
1 ACAAGAAGCAAATTAAAGACACAGCAGATCTGACCTTCACGTGTTTAC-CTGAAGCAGATCTAAG
31154180 ATGATTTGGCATC
65 ATGATTTGGCATC
31154193 TCTATATTGT
Statistics
Matches: 68, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
85 4 0.06
87 63 0.93
88 1 0.01
ACGTcount: A:0.33, C:0.18, G:0.22, T:0.27
Consensus pattern (86 bp):
ACAAGAAGCAAATTAAAGACACAGCAGATCTGACCTTCACGTGTTTACCTGAAGCAGATCTAAGA
TGATTTGGCATCCTTGTGTTC
Found at i:31154301 original size:261 final size:256
Alignment explanation
Indices: 31153790--31154302 Score: 713
Period size: 261 Copynumber: 2.0 Consensus size: 256
31153780 GAGAGCAGAT
* *
31153790 ACATAGCAGATCTAACCTTCATATGATTGAAGCAGATCCAAGATGGTTTGGCATCCTTATGCTTA
1 ACATAGCAGATCTAACCTTCAGATGATTGAAGCAGATCCAAGATGATTTGGCATCCTTATGCTTA
* * * *
31153855 CAAGGAACAAATCGAAGACATAGCTGATTTGGTTTTCGCGTGTTTACACTGAAGCAAATCTAAGA
66 CAAGGAACAAATCGAAGACACAGCAGATTTGGCTTTCACGTGTTTACACTGAAGCAAATCTAAGA
* * *
31153920 TGATTTGGCATCTCTGTATTGTTAGAGAACAAATCGAAGAAACAGATTTGGCGTCTCTGTATTCG
131 TGATTTGGCATCTCTATATTGTCAGAAAACAAATCGAAGAAACAGATTTGGCGTCTCTGTATTCG
** * *
31153985 GTGGAGAGTAGATCGAAGATATCAACAGGACAGTCATAAGTTTACAAGAAGCAGATTAAAG
196 ACGGAGAGCAGATCGAAGATATCAACAGGACAATCATAAGTTTACAAGAAGCAGATTAAAG
* * *
31154046 ACATAGCAGATCTGACCTTCAGATGATTTTACTGAAGCAGATCTAAGATGATTTGGCATCCTTGT
1 ACATAGCAGATCTAACCTTCAGATGA---T--TGAAGCAGATCCAAGATGATTTGGCATCCTTAT
* * * *
31154111 G-TTCACAAGGAGCAAATTGAAGACACAGCAGATTTGGCTTTCACGTGTTTACGCTGAAGCAGAT
61 GCTT-ACAAGGAACAAATCGAAGACACAGCAGATTTGGCTTTCACGTGTTTACACTGAAGCAAAT
* *
31154175 CTAAGATGATTTGGCATCTCTATATTGTCAGAAAACAAATGGAAGAAGCAGATTTGGCGTCTCTG
125 CTAAGATGATTTGGCATCTCTATATTGTCAGAAAACAAATCGAAGAAACAGATTTGGCGTCTCTG
* * * * * *
31154240 TGTTCGACGGAGAGCAGATCGAAGATATCAACATGACAATCCTGAGTTTGCAAGGAGCAGATT
190 TATTCGACGGAGAGCAGATCGAAGATATCAACAGGACAATCATAAGTTTACAAGAAGCAGATT
31154303 GAGGACCATG
Statistics
Matches: 223, Mismatches: 28, Indels: 7
0.86 0.11 0.03
Matches are distributed among these distances:
256 24 0.11
259 1 0.00
260 2 0.01
261 196 0.88
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (256 bp):
ACATAGCAGATCTAACCTTCAGATGATTGAAGCAGATCCAAGATGATTTGGCATCCTTATGCTTA
CAAGGAACAAATCGAAGACACAGCAGATTTGGCTTTCACGTGTTTACACTGAAGCAAATCTAAGA
TGATTTGGCATCTCTATATTGTCAGAAAACAAATCGAAGAAACAGATTTGGCGTCTCTGTATTCG
ACGGAGAGCAGATCGAAGATATCAACAGGACAATCATAAGTTTACAAGAAGCAGATTAAAG
Found at i:31154635 original size:16 final size:17
Alignment explanation
Indices: 31154585--31154635 Score: 59
Period size: 19 Copynumber: 2.9 Consensus size: 17
31154575 ATGGAAATAT
*
31154585 AATCTTTAAGGATATGC
1 AATCTTGAAGGATATGC
*
31154602 AATCTTAGATATGATATGC
1 AATCTT-GA-AGGATATGC
31154621 AATCTTGAA-GATATG
1 AATCTTGAAGGATATG
31154636 ATCTTGTAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 5
0.81 0.05 0.14
Matches are distributed among these distances:
16 6 0.20
17 7 0.23
18 3 0.10
19 14 0.47
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (17 bp):
AATCTTGAAGGATATGC
Found at i:31154654 original size:22 final size:21
Alignment explanation
Indices: 31154595--31154637 Score: 72
Period size: 19 Copynumber: 2.1 Consensus size: 21
31154585 AATCTTTAAG
31154595 GATATGCAATCTT--AGATAT
1 GATATGCAATCTTGAAGATAT
31154614 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTTGAAGATAT
31154635 GAT
1 GAT
31154638 CTTGTAATCT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
19 13 0.59
21 9 0.41
ACGTcount: A:0.37, C:0.09, G:0.19, T:0.35
Consensus pattern (21 bp):
GATATGCAATCTTGAAGATAT
Found at i:31158133 original size:27 final size:27
Alignment explanation
Indices: 31158102--31158154 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
31158092 CATACGCTAC
*
31158102 TACCAACT-TTGATTTCAGTGGTTGCCT
1 TACCAACTGTT-ATTTCAGAGGTTGCCT
*
31158129 TACCAACTGTTTTTTCAGAGGTTGCC
1 TACCAACTGTTATTTCAGAGGTTGCC
31158155 AAGATTTCCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
27 21 0.91
28 2 0.09
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.40
Consensus pattern (27 bp):
TACCAACTGTTATTTCAGAGGTTGCCT
Found at i:31159862 original size:42 final size:41
Alignment explanation
Indices: 31159737--31160046 Score: 332
Period size: 41 Copynumber: 7.5 Consensus size: 41
31159727 GTTTGCAAGA
* * *
31159737 AAACACCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTTC
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
* * *
31159778 AAAGGCCGCTAAAAACTGAGCAATAGCGGCATTTTTGGTCC
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
* * * * *
31159819 AAATGCCATTAAAAACTGAGCAAATAGTGGTGTTTTTGATCC
1 AAACGCCACTAAAAACTGAGC-AATAGCGGCGTTTTTGGTCC
*** * *
31159861 AAACGCCACTAAAAACTGAGCAATAGCAATGTTTCTAGTCC
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
* * * *
31159902 AAACGCTACTAAAAATTGAACAATAACGGCGTTTTTGGTCC
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
* * * * *
31159943 AAACACCACTAAAAACTAAGCAATAGTGGCTTTTTTGGTCA
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
* * * *
31159984 AAACTCCGCTAAAAACTGAGCAATAACGGCGTTTCTGGTCC
1 AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
* *
31160025 AAACGCCACTAAACATTGAGCA
1 AAACGCCACTAAAAACTGAGCA
31160047 GCCATTTTCG
Statistics
Matches: 217, Mismatches: 51, Indels: 2
0.80 0.19 0.01
Matches are distributed among these distances:
41 182 0.84
42 35 0.16
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (41 bp):
AAACGCCACTAAAAACTGAGCAATAGCGGCGTTTTTGGTCC
Found at i:31159914 original size:124 final size:123
Alignment explanation
Indices: 31159736--31160046 Score: 390
Period size: 124 Copynumber: 2.5 Consensus size: 123
31159726 TGTTTGCAAG
* * * *
31159736 AAAACACCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTTCAAAGGCCGCTAAAAACTGAGCAA
1 AAAACACCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTCCAAACGCCACTAAAAATTGAGCAA
* ** * *
31159801 TAGCGGCATTTTTGGTCCAAATGCCATTAAAAACTGAGCAAATAGTGG-TGTTTTTGATC
66 TAACGGCATTTTTGGTCCAAACACCACTAAAAACTAAGC-AATAGTGGCT-TTTTTGATC
* * *** * * *
31159860 CAAACGCCACTAAAAACTGAGCAATAGCAATGTTTCTAGTCCAAACGCTACTAAAAATTGAACAA
1 AAAACACCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTCCAAACGCCACTAAAAATTGAGCAA
* *
31159925 TAACGGCGTTTTTGGTCCAAACACCACTAAAAACTAAGCAATAGTGGCTTTTTTGGTC
66 TAACGGCATTTTTGGTCCAAACACCACTAAAAACTAAGCAATAGTGGCTTTTTTGATC
* * * *
31159983 AAAACTCCGCTAAAAACTGAGCAATAACGGCGTTTCTGGTCCAAACGCCACTAAACATTGAGCA
1 AAAACACCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTCCAAACGCCACTAAAAATTGAGCA
31160047 GCCATTTTCG
Statistics
Matches: 156, Mismatches: 30, Indels: 3
0.83 0.16 0.02
Matches are distributed among these distances:
123 69 0.44
124 87 0.56
ACGTcount: A:0.36, C:0.22, G:0.18, T:0.24
Consensus pattern (123 bp):
AAAACACCACTAAAAACTGAGCAATAGCGGCGTTTCTGGTCCAAACGCCACTAAAAATTGAGCAA
TAACGGCATTTTTGGTCCAAACACCACTAAAAACTAAGCAATAGTGGCTTTTTTGATC
Found at i:31160162 original size:24 final size:22
Alignment explanation
Indices: 31160114--31160163 Score: 55
Period size: 24 Copynumber: 2.2 Consensus size: 22
31160104 TATTATTTTC
** *
31160114 TTATTTTTTTTTGAATTTGATT
1 TTATTTTTTTTTGAAAGTGAAT
31160136 TTATTTTTATATTTGAAAGTGAAT
1 TTATTTTT-T-TTTGAAAGTGAAT
31160160 TTAT
1 TTAT
31160164 AAAAAATATA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
22 8 0.35
23 1 0.04
24 14 0.61
ACGTcount: A:0.26, C:0.00, G:0.10, T:0.64
Consensus pattern (22 bp):
TTATTTTTTTTTGAAAGTGAAT
Found at i:31160395 original size:36 final size:36
Alignment explanation
Indices: 31160328--31160396 Score: 86
Period size: 36 Copynumber: 1.9 Consensus size: 36
31160318 CCCTAAACCC
* * **
31160328 TAAACCTTAAACCTTAAATCCTAAATTCTAAAAACA
1 TAAACCATAAACATTAAATCCTAAACCCTAAAAACA
31160364 TAAACCATAAACATT-AATCCATAAACCCTAAAA
1 TAAACCATAAACATTAAATCC-TAAACCCTAAAA
31160397 CTTAATATGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
35 5 0.18
36 23 0.82
ACGTcount: A:0.52, C:0.23, G:0.00, T:0.25
Consensus pattern (36 bp):
TAAACCATAAACATTAAATCCTAAACCCTAAAAACA
Found at i:31160402 original size:21 final size:21
Alignment explanation
Indices: 31160321--31160401 Score: 65
Period size: 21 Copynumber: 3.8 Consensus size: 21
31160311 TCTAAACCCC
* *
31160321 TAAACCCTAAACCTTAAACCT
1 TAAACCCTAAAACTTAAACCA
* * * *
31160342 TAAATCCTAAATTCTAAAAACA
1 TAAACCCTAAA-ACTTAAACCA
* *
31160364 TAAACCAT-AAACATTAATCCA
1 TAAACCCTAAAAC-TTAAACCA
31160385 TAAACCCTAAAACTTAA
1 TAAACCCTAAAACTTAA
31160402 TATGAATGTT
Statistics
Matches: 45, Mismatches: 12, Indels: 6
0.71 0.19 0.10
Matches are distributed among these distances:
20 1 0.02
21 28 0.62
22 16 0.36
ACGTcount: A:0.51, C:0.25, G:0.00, T:0.25
Consensus pattern (21 bp):
TAAACCCTAAAACTTAAACCA
Found at i:31160556 original size:15 final size:15
Alignment explanation
Indices: 31160500--31160569 Score: 56
Period size: 14 Copynumber: 4.8 Consensus size: 15
31160490 ATTTATTTTT
*
31160500 GGTTTTAGGGTTTAA
1 GGTTTTATGGTTTAA
*
31160515 --TATTTAAGGTTTAA
1 GGT-TTTATGGTTTAA
* *
31160529 GG-TCTATGGTTTAG
1 GGTTTTATGGTTTAA
*
31160543 GGTTTTATGTTTTAA
1 GGTTTTATGGTTTAA
*
31160558 GGTTTAATGGTT
1 GGTTTTATGGTT
31160570 AGTATGTTAA
Statistics
Matches: 42, Mismatches: 9, Indels: 8
0.71 0.15 0.14
Matches are distributed among these distances:
13 1 0.02
14 22 0.52
15 19 0.45
ACGTcount: A:0.21, C:0.01, G:0.27, T:0.50
Consensus pattern (15 bp):
GGTTTTATGGTTTAA
Found at i:31160618 original size:35 final size:35
Alignment explanation
Indices: 31160594--31160682 Score: 92
Period size: 35 Copynumber: 2.5 Consensus size: 35
31160584 ATGGTTTAGG
31160594 GTTTGTTAGTTT-GGGTTTGGAGTTTAGTGTTTAAA
1 GTTTGTT-GTTTAGGGTTTGGAGTTTAGTGTTTAAA
* * *
31160629 GTTTGTTGTTTAGGGTTTAGTGTTTAG-GATTTAAG
1 GTTTGTTGTTTAGGGTTTGGAGTTTAGTG-TTTAAA
* *
31160664 GTTTTTATGTTTATGGTTT
1 GTTTGT-TGTTTAGGGTTT
31160683 TAAAGGTTAG
Statistics
Matches: 46, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
34 5 0.11
35 30 0.65
36 11 0.24
ACGTcount: A:0.16, C:0.00, G:0.29, T:0.55
Consensus pattern (35 bp):
GTTTGTTGTTTAGGGTTTGGAGTTTAGTGTTTAAA
Found at i:31160632 original size:21 final size:21
Alignment explanation
Indices: 31160608--31160647 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
31160598 GTTAGTTTGG
*
31160608 GTTTGGAGTTTAGTGTTTAAA
1 GTTTGGAGTTTAGGGTTTAAA
**
31160629 GTTTGTTGTTTAGGGTTTA
1 GTTTGGAGTTTAGGGTTTA
31160648 GTGTTTAGGA
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:0.17, C:0.00, G:0.30, T:0.53
Consensus pattern (21 bp):
GTTTGGAGTTTAGGGTTTAAA
Found at i:31160654 original size:14 final size:14
Alignment explanation
Indices: 31160615--31160661 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
31160605 TGGGTTTGGA
**
31160615 GTTTAGTGTTTAAA
1 GTTTAGTGTTTAGG
31160629 GTTT-GTTGTTTAGG
1 GTTTAG-TGTTTAGG
31160643 GTTTAGTGTTTAGG
1 GTTTAGTGTTTAGG
*
31160657 ATTTA
1 GTTTA
31160662 AGGTTTTTAT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
13 1 0.04
14 26 0.93
15 1 0.04
ACGTcount: A:0.19, C:0.00, G:0.28, T:0.53
Consensus pattern (14 bp):
GTTTAGTGTTTAGG
Found at i:31160832 original size:15 final size:15
Alignment explanation
Indices: 31160812--31160843 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
31160802 ACTATATATA
*
31160812 TTTAGGGTTTATGGT
1 TTTAGGGTTTAGGGT
31160827 TTTAGGGTTTAGGGT
1 TTTAGGGTTTAGGGT
31160842 TT
1 TT
31160844 GGTTTCATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.12, C:0.00, G:0.34, T:0.53
Consensus pattern (15 bp):
TTTAGGGTTTAGGGT
Found at i:31161166 original size:41 final size:41
Alignment explanation
Indices: 31161063--31161290 Score: 183
Period size: 41 Copynumber: 5.6 Consensus size: 41
31161053 CTCTAGTGGC
* * * * * *
31161063 ATTAGCAGCGC-TTTCTAAAAAATGCTGCTAGAGATTGAGA
1 ATTAGCAGCGCTTTTTTGAAAAACGCCGCTAAAGATCGAGA
** *** * * *
31161103 ATTAGTGGCGCTTTTACAAAAAACACTGCTAAAGATCAAGA
1 ATTAGCAGCGCTTTTTTGAAAAACGCCGCTAAAGATCGAGA
* *
31161144 ATTAGCAGCGCTTTTTTGAAAAACGCAGCTAAAGGTCGAGA
1 ATTAGCAGCGCTTTTTTGAAAAACGCCGCTAAAGATCGAGA
* * * *
31161185 ATTAGCTGTGCTTTTTTGAAAAATGCCGTTAAAGATCGAGA
1 ATTAGCAGCGCTTTTTTGAAAAACGCCGCTAAAGATCGAGA
** * *
31161226 ATTAGTGGCG-TTGTTTTGAAAAATGCCGCTAAAGATCTAGA
1 ATTAGCAGCGCTT-TTTTGAAAAACGCCGCTAAAGATCGAGA
* *
31161267 ATTAG-TGACACTTTTTTGAAAAAC
1 ATTAGCAG-CGCTTTTTTGAAAAAC
31161291 ATCGCAAAAA
Statistics
Matches: 152, Mismatches: 32, Indels: 7
0.80 0.17 0.04
Matches are distributed among these distances:
40 12 0.08
41 138 0.91
42 2 0.01
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.29
Consensus pattern (41 bp):
ATTAGCAGCGCTTTTTTGAAAAACGCCGCTAAAGATCGAGA
Found at i:31161199 original size:82 final size:82
Alignment explanation
Indices: 31161063--31161273 Score: 203
Period size: 82 Copynumber: 2.6 Consensus size: 82
31161053 CTCTAGTGGC
* * * * *
31161063 ATTAGCAGCGC-TTTCTAAAAAATGCTGCTAGAGATTGAGAATTAGTGGCGCTTTTACAAAAAAC
1 ATTAGCAGCGCTTTTTTGAAAAATGCAGCTAAAGATCGAGAATTAGTGGCGCTTTTACAAAAAAC
*
31161127 ACTGCTAAAGATCAAGA
66 ACCGCTAAAGATCAAGA
* * * ***
31161144 ATTAGCAGCGCTTTTTTGAAAAACGCAGCTAAAGGTCGAGAATTAGCT-GTGCTTTTTTGAAAAA
1 ATTAGCAGCGCTTTTTTGAAAAATGCAGCTAAAGATCGAGAATTAG-TGGCGCTTTTACAAAAAA
** * *
31161208 TGCCGTTAAAGATCGAGA
65 CACCGCTAAAGATCAAGA
** * *
31161226 ATTAGTGGCG-TTGTTTTGAAAAATGCCGCTAAAGATCTAGAATTAGTG
1 ATTAGCAGCGCTT-TTTTGAAAAATGCAGCTAAAGATCGAGAATTAGTG
31161274 ACACTTTTTT
Statistics
Matches: 104, Mismatches: 22, Indels: 7
0.78 0.17 0.05
Matches are distributed among these distances:
81 14 0.13
82 89 0.86
83 1 0.01
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (82 bp):
ATTAGCAGCGCTTTTTTGAAAAATGCAGCTAAAGATCGAGAATTAGTGGCGCTTTTACAAAAAAC
ACCGCTAAAGATCAAGA
Found at i:31161281 original size:82 final size:82
Alignment explanation
Indices: 31161132--31161289 Score: 203
Period size: 82 Copynumber: 1.9 Consensus size: 82
31161122 AAAACACTGC
* **
31161132 TAAAGATCAAGAATTAGCAGCGCTTTTTTGAAAAACGCAGCTAAAGGTCGAGAATTAGCTGTGCT
1 TAAAGATCAAGAATTAGCAGCGCTTTTTTGAAAAACGCAGCTAAAGATCGAGAATTAGCTGCACT
31161197 TTTTTGAAAAATGCCGT
66 TTTTTGAAAAATGCCGT
* ** * * *
31161214 TAAAGATCGAGAATTAGTGGCG-TTGTTTTGAAAAATGCCGCTAAAGATCTAGAATTAG-TGACA
1 TAAAGATCAAGAATTAGCAGCGCTT-TTTTGAAAAACGCAGCTAAAGATCGAGAATTAGCTG-CA
31161277 CTTTTTTGAAAAA
64 CTTTTTTGAAAAA
31161290 CATCGCAAAA
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
81 4 0.06
82 61 0.94
ACGTcount: A:0.35, C:0.13, G:0.22, T:0.30
Consensus pattern (82 bp):
TAAAGATCAAGAATTAGCAGCGCTTTTTTGAAAAACGCAGCTAAAGATCGAGAATTAGCTGCACT
TTTTTGAAAAATGCCGT
Found at i:31164137 original size:9 final size:9
Alignment explanation
Indices: 31164125--31164268 Score: 143
Period size: 9 Copynumber: 16.0 Consensus size: 9
31164115 TATATCATAT
31164125 CATAACTTA
1 CATAACTTA
31164134 CATAACTTA
1 CATAACTTA
31164143 -ATAACTTA
1 CATAACTTA
* *
31164151 TATATATCATA
1 CATA-A-CTTA
31164162 TCATAACTTA
1 -CATAACTTA
31164172 CATAACTTA
1 CATAACTTA
31164181 CATAACTTA
1 CATAACTTA
*
31164190 CGTAACTTA
1 CATAACTTA
31164199 CATAACTTA
1 CATAACTTA
*
31164208 CGTAACTTA
1 CATAACTTA
31164217 CATAACTTA
1 CATAACTTA
31164226 CATAA--TA
1 CATAACTTA
*
31164233 CATAA-ATA
1 CATAACTTA
* * *
31164241 TATATCATA
1 CATAACTTA
31164250 TCATAACTTA
1 -CATAACTTA
*
31164260 AATAACTTA
1 CATAACTTA
31164269 ATTATACTTA
Statistics
Matches: 115, Mismatches: 13, Indels: 14
0.81 0.09 0.10
Matches are distributed among these distances:
7 7 0.06
8 13 0.11
9 78 0.68
10 10 0.09
11 4 0.03
12 3 0.03
ACGTcount: A:0.45, C:0.18, G:0.01, T:0.35
Consensus pattern (9 bp):
CATAACTTA
Found at i:31169354 original size:14 final size:14
Alignment explanation
Indices: 31169312--31169354 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
31169302 TTTTAAATAT
31169312 TTATAAT-GTTTAA
1 TTATAATGGTTTAA
* *
31169325 TCATAGTGGTTTAA
1 TTATAATGGTTTAA
31169339 TTATAATGGTTTAA
1 TTATAATGGTTTAA
31169353 TT
1 TT
31169355 CATCGTTAGT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
13 5 0.20
14 20 0.80
ACGTcount: A:0.33, C:0.02, G:0.14, T:0.51
Consensus pattern (14 bp):
TTATAATGGTTTAA
Found at i:31172907 original size:22 final size:21
Alignment explanation
Indices: 31172889--31172930 Score: 57
Period size: 22 Copynumber: 2.0 Consensus size: 21
31172879 AATTTTTTTA
31172889 AAAATATTTATATTGTTTTATT
1 AAAATATTTATA-TGTTTTATT
**
31172911 TTAATATTTATATGTTTTAT
1 AAAATATTTATATGTTTTAT
31172931 ATGTTTTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.33, C:0.00, G:0.05, T:0.62
Consensus pattern (21 bp):
AAAATATTTATATGTTTTATT
Found at i:31182122 original size:14 final size:14
Alignment explanation
Indices: 31182103--31182137 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
31182093 ACTTTTTTAT
* *
31182103 TTCTAATGATATTA
1 TTCTAACGATACTA
31182117 TTCTAACGATACTA
1 TTCTAACGATACTA
31182131 TTCTAAC
1 TTCTAAC
31182138 ATGTAATTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.34, C:0.17, G:0.06, T:0.43
Consensus pattern (14 bp):
TTCTAACGATACTA
Found at i:31184064 original size:65 final size:63
Alignment explanation
Indices: 31183960--31184120 Score: 258
Period size: 65 Copynumber: 2.6 Consensus size: 63
31183950 GGGATGTTAC
*
31183960 ACAAACTTTGTAATAT--A-ATTTTTTATATAAATTAAATACATTACAGCATTAAAAATTGGA
1 ACAAACTTTGTAATATAAATATTTTTTATATAAATTAAATACATTACAACATTAAAAATTGGA
*
31184020 ACAAACTTTGTAATATAAATTTATTTTTTATATAAATTAAATACATTACAACATTGAAAATTGGA
1 ACAAACTTTGTAATATAAA--TATTTTTTATATAAATTAAATACATTACAACATTAAAAATTGGA
31184085 ACAAACTTTGTAATATAAAT-TTTTTTATATAAATTA
1 ACAAACTTTGTAATATAAATATTTTTTATATAAATTA
31184121 CATAAGCTTA
Statistics
Matches: 94, Mismatches: 2, Indels: 8
0.90 0.02 0.08
Matches are distributed among these distances:
60 16 0.17
62 17 0.18
63 1 0.01
65 60 0.64
ACGTcount: A:0.46, C:0.07, G:0.06, T:0.41
Consensus pattern (63 bp):
ACAAACTTTGTAATATAAATATTTTTTATATAAATTAAATACATTACAACATTAAAAATTGGA
Found at i:31188871 original size:43 final size:43
Alignment explanation
Indices: 31188735--31188892 Score: 166
Period size: 43 Copynumber: 3.7 Consensus size: 43
31188725 TGTGTTATCG
* * *
31188735 TGTAAGACCACGTTTGGGACGTTGGCATCGACT-TATGATTTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGA-TATTTGA-TTACA
*
31188779 TGTAAGACCACGTCTGGGACGTTGGGCATCG-TATTTGATT--T
1 TGTAAGACCACGTCTGGGACGTT-GGCATCGATATTTGATTACA
31188820 TGAATAAGACC-CTGTCTGGGACAG-TGGCATCGATATTTGATTACA
1 TG--TAAGACCAC-GTCTGGGAC-GTTGGCATCGATATTTGATTACA
*
31188865 TGTAAGACCACGTCTGGGACATTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
31188893 TGTACGAGCT
Statistics
Matches: 98, Mismatches: 5, Indels: 23
0.78 0.04 0.18
Matches are distributed among these distances:
41 2 0.02
42 8 0.08
43 51 0.52
44 28 0.29
45 9 0.09
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.30
Consensus pattern (43 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATATTTGATTACA
Found at i:31191118 original size:40 final size:40
Alignment explanation
Indices: 31191052--31191272 Score: 295
Period size: 40 Copynumber: 5.6 Consensus size: 40
31191042 TATTCGAATG
* * *
31191052 ATATCTGGGTTAAGT-CCGAAGGCATTTATGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
*
31191091 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTATTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
31191131 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
* * * *
31191171 ATATCCAGGCTAAGTCCCGAAGGCTTTTGTGCTATTGACT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
* * * *
31191211 ATATCCGGGCTAAGACCCGAAGGCATTTGCGCGAGTTG-CT
1 ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAG-TGATT
*
31191251 ATATCC-GGCTAAATCCCGAAGG
1 ATATCCGGGCTAAGTCCCGAAGG
31191273 TACTTGGGTT
Statistics
Matches: 163, Mismatches: 17, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
39 27 0.17
40 134 0.82
41 2 0.01
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (40 bp):
ATATCCGGGCTAAGTCCCGAAGGCATTTGTGCTAGTGATT
Found at i:31193145 original size:23 final size:23
Alignment explanation
Indices: 31193093--31193145 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
31193083 TTTAGCCATG
*
31193093 TGATATGGCTTGGTTTTGGTTGA
1 TGATATGGCTTGATTTTGGTTGA
** *
31193116 TCTTATGGTTTGATTTTGGTAT-A
1 TGATATGGCTTGATTTTGGT-TGA
31193139 TGATATG
1 TGATATG
31193146 TAACGCAAAT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
23 22 0.96
24 1 0.04
ACGTcount: A:0.17, C:0.04, G:0.28, T:0.51
Consensus pattern (23 bp):
TGATATGGCTTGATTTTGGTTGA
Found at i:31195804 original size:40 final size:40
Alignment explanation
Indices: 31195730--31195940 Score: 230
Period size: 40 Copynumber: 5.3 Consensus size: 40
31195720 TCTTCAGGAT
** * *
31195730 TTAG-CCGGATATAACCACTCGCAC-AAGGCCTTCGGGTC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
* * *
31195768 TTAGCCCGGATATGGTCACTAGCATAAATGCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
* * * *
31195808 TTAGCCCAGATATAATCGCTAGCACAAATACCTTCGGGTC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
* *
31195848 TTAGCCCGGATATAG-CAACTCGCACAAATGCCTTCGGATC
1 TTAGCCCGGATATAGTC-ACTAGCACAAATGCCTTCGGGTC
* * * *
31195888 TTAGTCCGGATATAGTCACTAGCATAAAAGCCTTCGGGAC
1 TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
*
31195928 TTAGCTCGGATAT
1 TTAGCCCGGATAT
31195941 CATTCGAATA
Statistics
Matches: 141, Mismatches: 28, Indels: 6
0.81 0.16 0.03
Matches are distributed among these distances:
38 4 0.03
39 16 0.11
40 120 0.85
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATAGTCACTAGCACAAATGCCTTCGGGTC
Found at i:31203906 original size:40 final size:40
Alignment explanation
Indices: 31203823--31204041 Score: 241
Period size: 40 Copynumber: 5.5 Consensus size: 40
31203813 ACCCAAGTAT
** * *
31203823 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
31203861 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* * *
31203901 CTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
31203941 CTTC-GGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * *
31203980 CTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
31204020 CTTCGGGACTTAGCTCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
31204042 CATTCGAATA
Statistics
Matches: 151, Mismatches: 24, Indels: 10
0.82 0.13 0.05
Matches are distributed among these distances:
37 1 0.01
38 12 0.08
39 48 0.32
40 89 0.59
41 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:31203953 original size:79 final size:79
Alignment explanation
Indices: 31203823--31204041 Score: 257
Period size: 79 Copynumber: 2.8 Consensus size: 79
31203813 ACCCAAGTAT
* * * * *
31203823 CTTCGGGATTTAGCCGGATATAACCACTCGCAC-AAGGCCTTCGGGTCTTAGCCCGGATATGGTC
1 CTTCGGGACTTAGCCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAG-C
*
31203887 -ACTAGCATAAATGC
65 AACTAGCACAAATGC
* *
31203901 CTTCGGGACTTAGCCCGGATATAATCGCTAGCACAAATGCCTTC-GGTCTTAGCCCGGATATAGC
1 CTTCGGGACTTAG-CCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGC
*
31203965 AACTCGCACAAATGC
65 AACTAGCACAAATGC
* * * *
31203980 CTTC-GGATCTTAGTCCGGATATAGTCACTAGCATAAAAGCCTTCGGGACTTAGCTCGGATAT
1 CTTCGGGA-CTTAG-CCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATAT
31204042 CATTCGAATA
Statistics
Matches: 121, Mismatches: 15, Indels: 8
0.84 0.10 0.06
Matches are distributed among these distances:
78 16 0.13
79 82 0.68
80 23 0.19
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (79 bp):
CTTCGGGACTTAGCCGGATATAATCACTAGCACAAAAGCCTTCGGGTCTTAGCCCGGATATAGCA
ACTAGCACAAATGC
Found at i:31212022 original size:40 final size:40
Alignment explanation
Indices: 31211952--31212158 Score: 238
Period size: 40 Copynumber: 5.2 Consensus size: 40
31211942 CGGGATTTCG
** * *
31211952 CCGGATATAACCACTCGCAC-AAGGCCTTCGGGTCTTAGC
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
31211991 CCGGATATGGTCACTAGCATAAATGCCTTCGGGACTTAGC
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
31212031 CCGAATATAATCGCTAGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
31212071 CCGGATATAG-CAACTCGCACAAATGCCTTCGGATCTTAGT
1 CCGGATATAGTC-ACTAGCACAAATGCCTTCGGGTCTTAGC
* * *
31212111 CCGGATATAGTCACTAGCATAAAAGCCTTCGGGACTTAGC
1 CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAGC
*
31212151 TCGGATAT
1 CCGGATAT
31212159 TATTCGAATA
Statistics
Matches: 139, Mismatches: 26, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
39 16 0.12
40 122 0.88
41 1 0.01
ACGTcount: A:0.27, C:0.27, G:0.22, T:0.24
Consensus pattern (40 bp):
CCGGATATAGTCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:31222651 original size:42 final size:43
Alignment explanation
Indices: 31222542--31222684 Score: 118
Period size: 42 Copynumber: 3.3 Consensus size: 43
31222532 ATATGTGTTA
* * *
31222542 TCGTGTAAGACCACGT-CTGGGAC-GTTGGCCTCAACTA-ATGATT
1 TCGTGTAAGACCACGTCCT-GGACAG-TGGCATCGA-TATTTGATT
* *
31222585 TACGTGTAAGACCACGTCCTGGACATTGGTATCG-TATTTGATT
1 T-CGTGTAAGACCACGTCCTGGACAGTGGCATCGATATTTGATT
*
31222628 TCGTGTAAGACC-CTGT-TTGGGACAGTGGCATCGATATTTGATT
1 TCGTGTAAGACCAC-GTCCT-GGACAGTGGCATCGATATTTGATT
* *
31222671 ACATGTAAGACCAC
1 TCGTGTAAGACCAC
31222685 ATCTGGGACG
Statistics
Matches: 82, Mismatches: 10, Indels: 15
0.77 0.09 0.14
Matches are distributed among these distances:
41 2 0.02
42 27 0.33
43 26 0.32
44 25 0.30
45 2 0.02
ACGTcount: A:0.24, C:0.20, G:0.24, T:0.31
Consensus pattern (43 bp):
TCGTGTAAGACCACGTCCTGGACAGTGGCATCGATATTTGATT
Found at i:31222692 original size:43 final size:43
Alignment explanation
Indices: 31222530--31222701 Score: 158
Period size: 43 Copynumber: 4.0 Consensus size: 43
31222520 AAATAGGATC
* *
31222530 CGATATGTG-TTATCGTGTAAGACCACGTCTGGGACGTTGGCCT
1 CGATATTTGATTA-CGTGTAAGACCACGTCTGGGACGTTGGCAT
* * * *
31222573 CAACTA-ATGATTTACGTGTAAGACCACGTCCT-GGACATTGGTAT
1 CGA-TATTTGA-TTACGTGTAAGACCACGT-CTGGGACGTTGGCAT
* *
31222617 CG-TATTTGATTTCGTGTAAGACC-CTGTTTGGGACAG-TGGCAT
1 CGATATTTGATTACGTGTAAGACCAC-GTCTGGGAC-GTTGGCAT
* *
31222659 CGATATTTGATTACATGTAAGACCACATCTGGGACGTTGGCAT
1 CGATATTTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
31222702 TGTATGAGCT
Statistics
Matches: 103, Mismatches: 15, Indels: 22
0.74 0.11 0.16
Matches are distributed among these distances:
41 2 0.02
42 29 0.28
43 39 0.38
44 28 0.27
45 5 0.05
ACGTcount: A:0.24, C:0.19, G:0.26, T:0.31
Consensus pattern (43 bp):
CGATATTTGATTACGTGTAAGACCACGTCTGGGACGTTGGCAT
Found at i:31223282 original size:23 final size:23
Alignment explanation
Indices: 31223230--31223282 Score: 54
Period size: 23 Copynumber: 2.3 Consensus size: 23
31223220 TTTAGCCATG
*
31223230 TGATATGGCTTGGTTTTGGTTGA
1 TGATATGGCTTGATTTTGGTTGA
** *
31223253 TCTTATGGTTTGATTTTGGTAT-A
1 TGATATGGCTTGATTTTGGT-TGA
31223276 TGATATG
1 TGATATG
31223283 TGATGCAAAT
Statistics
Matches: 23, Mismatches: 6, Indels: 2
0.74 0.19 0.06
Matches are distributed among these distances:
23 22 0.96
24 1 0.04
ACGTcount: A:0.17, C:0.04, G:0.28, T:0.51
Consensus pattern (23 bp):
TGATATGGCTTGATTTTGGTTGA
Found at i:31224607 original size:19 final size:20
Alignment explanation
Indices: 31224583--31224641 Score: 77
Period size: 19 Copynumber: 3.0 Consensus size: 20
31224573 AAAAAATTAC
*
31224583 CTTTTCTTTTCTT-TCTTCT
1 CTTTTCTTCTCTTCTCTTCT
31224602 CTTTTC-TCTCTTCTCTTCT
1 CTTTTCTTCTCTTCTCTTCT
* *
31224621 CTTCTCTTCTATTCTCTTCT
1 CTTTTCTTCTCTTCTCTTCT
31224641 C
1 C
31224642 CCTCTCTTGT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
18 5 0.14
19 17 0.49
20 13 0.37
ACGTcount: A:0.02, C:0.34, G:0.00, T:0.64
Consensus pattern (20 bp):
CTTTTCTTCTCTTCTCTTCT
Found at i:31224628 original size:15 final size:15
Alignment explanation
Indices: 31224587--31224641 Score: 69
Period size: 14 Copynumber: 3.8 Consensus size: 15
31224577 AATTACCTTT
*
31224587 TCTTTTCTT-TCTTC
1 TCTTCTCTTCTCTTC
*
31224601 TCTTTTC-TCTCTTC
1 TCTTCTCTTCTCTTC
31224615 TCTTCTCTTCTCTTC
1 TCTTCTCTTCTCTTC
*
31224630 TATTCTCTTCTC
1 TCTTCTCTTCTC
31224642 CCTCTCTTGT
Statistics
Matches: 37, Mismatches: 2, Indels: 3
0.88 0.05 0.07
Matches are distributed among these distances:
13 1 0.03
14 18 0.49
15 18 0.49
ACGTcount: A:0.02, C:0.35, G:0.00, T:0.64
Consensus pattern (15 bp):
TCTTCTCTTCTCTTC
Found at i:31224641 original size:5 final size:5
Alignment explanation
Indices: 31224587--31224641 Score: 69
Period size: 5 Copynumber: 11.4 Consensus size: 5
31224577 AATTACCTTT
* * *
31224587 TCTTT TCTT- TCTTC TCTTT TC-TC TCTTC TCTTC TCTTC TCTTC TATTC
1 TCTTC TCTTC TCTTC TCTTC TCTTC TCTTC TCTTC TCTTC TCTTC TCTTC
31224635 TCTTC TC
1 TCTTC TC
31224642 CCTCTCTTGT
Statistics
Matches: 44, Mismatches: 4, Indels: 4
0.85 0.08 0.08
Matches are distributed among these distances:
4 7 0.16
5 37 0.84
ACGTcount: A:0.02, C:0.35, G:0.00, T:0.64
Consensus pattern (5 bp):
TCTTC
Found at i:31224868 original size:16 final size:16
Alignment explanation
Indices: 31224830--31224869 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
31224820 TCAACCCCTT
31224830 TTTTTATTATTTTTTAA
1 TTTTT-TTATTTTTTAA
**
31224847 AATTTTTATTTTTTAA
1 TTTTTTTATTTTTTAA
31224863 TTTTTTT
1 TTTTTTT
31224870 TCTACTGTTA
Statistics
Matches: 19, Mismatches: 4, Indels: 1
0.79 0.17 0.04
Matches are distributed among these distances:
16 16 0.84
17 3 0.16
ACGTcount: A:0.23, C:0.00, G:0.00, T:0.78
Consensus pattern (16 bp):
TTTTTTTATTTTTTAA
Done.