Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01009587.1 Hibiscus syriacus cultivar Beakdansim tig00116965_pilon, whole genome shotgun sequence
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: 6483253
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 6 of 29
Found at i:1218200 original size:16 final size:16
Alignment explanation
Indices: 1218181--1218217 Score: 58
Period size: 16 Copynumber: 2.3 Consensus size: 16
1218171 ATAAAATATC
1218181 AAAAAGA-AAAAATCCA
1 AAAAAGAGAAAAA-CCA
1218197 AAAAAGAGAAAAACCA
1 AAAAAGAGAAAAACCA
1218213 AAAAA
1 AAAAA
1218218 ATTAAAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 15 0.75
17 5 0.25
ACGTcount: A:0.78, C:0.11, G:0.08, T:0.03
Consensus pattern (16 bp):
AAAAAGAGAAAAACCA
Found at i:1219075 original size:296 final size:296
Alignment explanation
Indices: 1218541--1219132 Score: 1175
Period size: 296 Copynumber: 2.0 Consensus size: 296
1218531 TCCAGCGAAT
1218541 TAGGTTTTTTTGGATTTAGTTTTTTCCACTACATAATCTAACACATTTTCTTTCTTGTGTTAGTA
1 TAGGTTTTTTTGGATTTAGTTTTTTCCACTACATAATCTAACACATTTTCTTTCTTGTGTTAGTA
*
1218606 GGACTAAAAGGGTTTGCATACTTATTCTTCCGTCAATTCTCGTTCTCTTGTAATTTTACCTTTGT
66 GGACTAAAAGAGTTTGCATACTTATTCTTCCGTCAATTCTCGTTCTCTTGTAATTTTACCTTTGT
1218671 TTGACCTCTTAGAGATTTGGGTATACCATTGATCACTCAACTATATAATGTGTTTAATTAAACCA
131 TTGACCTCTTAGAGATTTGGGTATACCATTGATCACTCAACTATATAATGTGTTTAATTAAACCA
1218736 CTAGTCGTTAATGGTTGACGAAAATGCTGATGTGACCATCAAATAATTTGGTCCTAATTGAAATT
196 CTAGTCGTTAATGGTTGACGAAAATGCTGATGTGACCATCAAATAATTTGGTCCTAATTGAAATT
1218801 TAATTTAATAAATTTAATCCTCTAATCATATTGTGA
261 TAATTTAATAAATTTAATCCTCTAATCATATTGTGA
1218837 TAGGTTTTTTTGGATTTAGTTTTTTCCACTACATAATCTAACACATTTTCTTTCTTGTGTTAGTA
1 TAGGTTTTTTTGGATTTAGTTTTTTCCACTACATAATCTAACACATTTTCTTTCTTGTGTTAGTA
1218902 GGACTAAAAGAGTTTGCATACTTATTCTTCCGTCAATTCTCGTTCTCTTGTAATTTTACCTTTGT
66 GGACTAAAAGAGTTTGCATACTTATTCTTCCGTCAATTCTCGTTCTCTTGTAATTTTACCTTTGT
1218967 TTGACCTCTTAGAGATTTGGGTATACCATTGATCACTCAACTATATAATGTGTTTAATTAAACCA
131 TTGACCTCTTAGAGATTTGGGTATACCATTGATCACTCAACTATATAATGTGTTTAATTAAACCA
1219032 CTAGTCGTTAATGGTTGACGAAAATGCTGATGTGACCATCAAATAATTTGGTCCTAATTGAAATT
196 CTAGTCGTTAATGGTTGACGAAAATGCTGATGTGACCATCAAATAATTTGGTCCTAATTGAAATT
1219097 TAATTTAATAAATTTAATCCTCTAATCATATTGTGA
261 TAATTTAATAAATTTAATCCTCTAATCATATTGTGA
1219133 CATATTTTTA
Statistics
Matches: 295, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
296 295 1.00
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.42
Consensus pattern (296 bp):
TAGGTTTTTTTGGATTTAGTTTTTTCCACTACATAATCTAACACATTTTCTTTCTTGTGTTAGTA
GGACTAAAAGAGTTTGCATACTTATTCTTCCGTCAATTCTCGTTCTCTTGTAATTTTACCTTTGT
TTGACCTCTTAGAGATTTGGGTATACCATTGATCACTCAACTATATAATGTGTTTAATTAAACCA
CTAGTCGTTAATGGTTGACGAAAATGCTGATGTGACCATCAAATAATTTGGTCCTAATTGAAATT
TAATTTAATAAATTTAATCCTCTAATCATATTGTGA
Found at i:1230937 original size:16 final size:16
Alignment explanation
Indices: 1230892--1230937 Score: 51
Period size: 14 Copynumber: 3.0 Consensus size: 16
1230882 TTTTATGACA
* *
1230892 TGATACCTGATTTTTT
1 TGATATCTGATTTATT
*
1230908 TAATAT-TG-TTTATT
1 TGATATCTGATTTATT
1230922 TGATATCTGATTTATT
1 TGATATCTGATTTATT
1230938 GTACATTTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
14 10 0.42
15 4 0.17
16 10 0.42
ACGTcount: A:0.24, C:0.07, G:0.11, T:0.59
Consensus pattern (16 bp):
TGATATCTGATTTATT
Found at i:1232689 original size:53 final size:53
Alignment explanation
Indices: 1232628--1232733 Score: 212
Period size: 53 Copynumber: 2.0 Consensus size: 53
1232618 GAGATTTGAG
1232628 AATGGACTCAGTTATGAGATCAGGTGTTGAGTTGCTATCCATCGAGAGAGGAA
1 AATGGACTCAGTTATGAGATCAGGTGTTGAGTTGCTATCCATCGAGAGAGGAA
1232681 AATGGACTCAGTTATGAGATCAGGTGTTGAGTTGCTATCCATCGAGAGAGGAA
1 AATGGACTCAGTTATGAGATCAGGTGTTGAGTTGCTATCCATCGAGAGAGGAA
1232734 TTTTGATGCC
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
53 53 1.00
ACGTcount: A:0.30, C:0.13, G:0.30, T:0.26
Consensus pattern (53 bp):
AATGGACTCAGTTATGAGATCAGGTGTTGAGTTGCTATCCATCGAGAGAGGAA
Found at i:1234893 original size:30 final size:30
Alignment explanation
Indices: 1234857--1234928 Score: 117
Period size: 30 Copynumber: 2.4 Consensus size: 30
1234847 CCCGCAGGAC
*
1234857 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCAGAGGTCATAAAGATCCTCGGCAA
1234887 CTATCCAGAGGTCATAAAGATCCTCGGCAA
1 CTATCCAGAGGTCATAAAGATCCTCGGCAA
* *
1234917 CTGTCCATAGGT
1 CTATCCAGAGGT
1234929 TCCGAAGAAC
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 39 1.00
ACGTcount: A:0.31, C:0.25, G:0.21, T:0.24
Consensus pattern (30 bp):
CTATCCAGAGGTCATAAAGATCCTCGGCAA
Found at i:1234953 original size:31 final size:31
Alignment explanation
Indices: 1234915--1235228 Score: 273
Period size: 31 Copynumber: 10.0 Consensus size: 31
1234905 GATCCTCGGC
* *
1234915 AACTGTCCATAGGTTCCGAAGAACCTAGGTA
1 AACTGTCCATATGTTCCGAAGAACATAGGTA
**
1234946 AACTGTCCATATGTTCCTTAGAACATAGGTA
1 AACTGTCCATATGTTCCGAAGAACATAGGTA
* *
1234977 TATTGTCCATATG-TCTCGAA-AGACATAGGTA
1 AACTGTCCATATGTTC-CGAAGA-ACATAGGTA
* **
1235008 ATTCTGTCCATATGTTCCTTAGAACATAGGTA
1 A-ACTGTCCATATGTTCCGAAGAACATAGGTA
*
1235040 TACTGTCCATATG-TCTCGAA-AGACATAGGTA
1 AACTGTCCATATGTTC-CGAAGA-ACATAGGTA
* **
1235071 ATTCTGTCCATATGTTCCTTAGAACATAGGTA
1 A-ACTGTCCATATGTTCCGAAGAACATAGGTA
*
1235103 TACTGTCCATATG-TCTCGAA-AGACATAGGTA
1 AACTGTCCATATGTTC-CGAAGA-ACATAGGTA
* ** *
1235134 ATTCTGTCCATATGTTCCTTAGAACATATGTA
1 A-ACTGTCCATATGTTCCGAAGAACATAGGTA
* **
1235166 TACTGTCCATATGTCTCAAAAG-ACATAGGTA
1 AACTGTCCATATGT-TCCGAAGAACATAGGTA
* *
1235197 ATTCTGTCCATATGTTCCGTAGAACATAGGTA
1 A-ACTGTCCATATGTTCCGAAGAACATAGGTA
1235229 TACCCTCAAC
Statistics
Matches: 224, Mismatches: 41, Indels: 35
0.75 0.14 0.12
Matches are distributed among these distances:
30 9 0.04
31 117 0.52
32 89 0.40
33 9 0.04
ACGTcount: A:0.31, C:0.19, G:0.18, T:0.32
Consensus pattern (31 bp):
AACTGTCCATATGTTCCGAAGAACATAGGTA
Found at i:1235025 original size:63 final size:63
Alignment explanation
Indices: 1234940--1235231 Score: 532
Period size: 63 Copynumber: 4.7 Consensus size: 63
1234930 CCGAAGAACC
* *
1234940 TAGGTAA-ACTGTCCATATGTTCCTTAGAACATAGGTATATTGTCCATATGTCTCGAAAGACA
1 TAGGTAATTCTGTCCATATGTTCCTTAGAACATAGGTATACTGTCCATATGTCTCGAAAGACA
1235002 TAGGTAATTCTGTCCATATGTTCCTTAGAACATAGGTATACTGTCCATATGTCTCGAAAGACA
1 TAGGTAATTCTGTCCATATGTTCCTTAGAACATAGGTATACTGTCCATATGTCTCGAAAGACA
1235065 TAGGTAATTCTGTCCATATGTTCCTTAGAACATAGGTATACTGTCCATATGTCTCGAAAGACA
1 TAGGTAATTCTGTCCATATGTTCCTTAGAACATAGGTATACTGTCCATATGTCTCGAAAGACA
* *
1235128 TAGGTAATTCTGTCCATATGTTCCTTAGAACATATGTATACTGTCCATATGTCTCAAAAGACA
1 TAGGTAATTCTGTCCATATGTTCCTTAGAACATAGGTATACTGTCCATATGTCTCGAAAGACA
*
1235191 TAGGTAATTCTGTCCATATGTTCCGTAGAACATAGGTATAC
1 TAGGTAATTCTGTCCATATGTTCCTTAGAACATAGGTATAC
1235232 CCTCAACTCT
Statistics
Matches: 223, Mismatches: 6, Indels: 1
0.97 0.03 0.00
Matches are distributed among these distances:
62 7 0.03
63 216 0.97
ACGTcount: A:0.31, C:0.18, G:0.17, T:0.34
Consensus pattern (63 bp):
TAGGTAATTCTGTCCATATGTTCCTTAGAACATAGGTATACTGTCCATATGTCTCGAAAGACA
Found at i:1236539 original size:64 final size:64
Alignment explanation
Indices: 1236387--1236543 Score: 162
Period size: 64 Copynumber: 2.5 Consensus size: 64
1236377 CAATAAGGGT
* * **
1236387 ATGCATCGATGCACTA-CTGATGCATCGGTGCATAAAATACATTCGATGTTGTATTATTATTAGG
1 ATGCATCGATGCACTACCTG-TGCATCGATGCATAAAATACATTCGATGTTCTATTATTAAAAGG
* * * *
1236451 ATGCATCGATGCA-TGCCTTATGCATCGATGCACT-AATTGCATTCGATGTTTCTATT-TTAAAA
1 ATGCATCGATGCACTACC-TGTGCATCGATGCA-TAAAATACATTCGATG-TTCTATTATTAAAA
1236513 -G
63 GG
1236514 AGTGCATCGATGCACTACCTGTGCATCGAT
1 A-TGCATCGATGCACTACCTGTGCATCGAT
1236544 ACACCATCAA
Statistics
Matches: 77, Mismatches: 10, Indels: 12
0.78 0.10 0.12
Matches are distributed among these distances:
63 3 0.04
64 63 0.82
65 11 0.14
ACGTcount: A:0.27, C:0.19, G:0.20, T:0.34
Consensus pattern (64 bp):
ATGCATCGATGCACTACCTGTGCATCGATGCATAAAATACATTCGATGTTCTATTATTAAAAGG
Found at i:1239724 original size:30 final size:30
Alignment explanation
Indices: 1239688--1239758 Score: 108
Period size: 29 Copynumber: 2.4 Consensus size: 30
1239678 CCCGCAGGAC
* *
1239688 CTATCCAGAGGTCATAAAGATCCTCGGTAA
1 CTATCCATAGGTCATAAAGATCCTCGGCAA
1239718 CTATCCATA-GTCATAAAGATCCTCGGCAA
1 CTATCCATAGGTCATAAAGATCCTCGGCAA
*
1239747 CTGTCCATAGGT
1 CTATCCATAGGT
1239759 TCCGAAGAAC
Statistics
Matches: 37, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
29 27 0.73
30 10 0.27
ACGTcount: A:0.31, C:0.25, G:0.18, T:0.25
Consensus pattern (30 bp):
CTATCCATAGGTCATAAAGATCCTCGGCAA
Found at i:1239842 original size:32 final size:32
Alignment explanation
Indices: 1239768--1239980 Score: 191
Period size: 32 Copynumber: 6.9 Consensus size: 32
1239758 TTCCGAAGAA
* *
1239768 CTGTCCATATGT-TCCTTAGAACATAGGT-ATA
1 CTGTCCATATGTCT-CGTAGAACATAGGTAATT
*
1239799 CTGTCCATATGTCTCG-AAAGACATAGGTAATT
1 CTGTCCATATGTCTCGTAGA-ACATAGGTAATT
* * *
1239831 CTATCCATATGT-TCCTTAGAACATAGGT-ATA
1 CTGTCCATATGTCT-CGTAGAACATAGGTAATT
*
1239862 ATGTCCATATGTCTC---G-ACATAGGTAATT
1 CTGTCCATATGTCTCGTAGAACATAGGTAATT
*
1239890 CTGTCCATATGT-TCCTTAGAACATAGGT-A-T
1 CTGTCCATATGTCT-CGTAGAACATAGGTAATT
* *
1239920 ATGTCCATATGTCTCG-AAAGACATAGGTAATT
1 CTGTCCATATGTCTCGTAGA-ACATAGGTAATT
*
1239952 CTGTCCATATGTTTCGTAGAACATAGGTA
1 CTGTCCATATGTCTCGTAGAACATAGGTA
1239981 TACCCTCAAC
Statistics
Matches: 148, Mismatches: 17, Indels: 33
0.75 0.09 0.17
Matches are distributed among these distances:
27 9 0.06
28 15 0.10
29 2 0.01
30 23 0.16
31 39 0.26
32 56 0.38
33 4 0.03
ACGTcount: A:0.30, C:0.18, G:0.17, T:0.34
Consensus pattern (32 bp):
CTGTCCATATGTCTCGTAGAACATAGGTAATT
Found at i:1239842 original size:63 final size:63
Alignment explanation
Indices: 1239768--1239983 Score: 361
Period size: 63 Copynumber: 3.5 Consensus size: 63
1239758 TTCCGAAGAA
1239768 CTGTCCATATGTTCCTTAGAACATAGGTATACTGTCCATATGTCTCGAAAGACATAGGTAATT
1 CTGTCCATATGTTCCTTAGAACATAGGTATACTGTCCATATGTCTCGAAAGACATAGGTAATT
* *
1239831 CTATCCATATGTTCCTTAGAACATAGGTATAATGTCCATATGTCTC----GACATAGGTAATT
1 CTGTCCATATGTTCCTTAGAACATAGGTATACTGTCCATATGTCTCGAAAGACATAGGTAATT
1239890 CTGTCCATATGTTCCTTAGAACATAGGTATA-TGTCCATATGTCTCGAAAGACATAGGTAATT
1 CTGTCCATATGTTCCTTAGAACATAGGTATACTGTCCATATGTCTCGAAAGACATAGGTAATT
* *
1239952 CTGTCCATATGTTTCGTAGAACATAGGTATAC
1 CTGTCCATATGTTCCTTAGAACATAGGTATAC
1239984 CCTCAACTCT
Statistics
Matches: 143, Mismatches: 5, Indels: 10
0.91 0.03 0.06
Matches are distributed among these distances:
58 14 0.10
59 43 0.30
62 42 0.29
63 44 0.31
ACGTcount: A:0.30, C:0.19, G:0.17, T:0.34
Consensus pattern (63 bp):
CTGTCCATATGTTCCTTAGAACATAGGTATACTGTCCATATGTCTCGAAAGACATAGGTAATT
Found at i:1242441 original size:55 final size:55
Alignment explanation
Indices: 1242354--1242661 Score: 291
Period size: 55 Copynumber: 5.6 Consensus size: 55
1242344 ATTCATCATG
* * *
1242354 TCAAGAAACCTCTGAAAATCA-AGCATAATTTCTTTGAAAGCTCATTTAAAAATCA
1 TCAAGAAACTTCTGAAAATCAGA-CTTAGTTTCTTTGAAAGCTCATTTAAAAATCA
* * * * * * ** *
1242409 TCAAGAAGCTACTAAAAATCAGATTTAGTTTCTTTAAAAACTCATTGGAAAATCG
1 TCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTGAAAGCTCATTTAAAAATCA
* * * * *
1242464 TCAAGAAACTTTTGAAAATTAGACTTAGTTTCTTTAAAAACCCATTT-AAAATCA
1 TCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTGAAAGCTCATTTAAAAATCA
* * * * * * *
1242518 TCAGGAAACTTTTGAAAATCAGGCTTAGTTTATGTGAATTG-TCATTTAAAAATAA
1 TCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTGAA-AGCTCATTTAAAAATCA
* * * *
1242573 TCAAGAAACTTCTAAAAATGAGACTTAGATTT-TCTGAAAGGTCATTTAAAAAATCA
1 TCAAGAAACTTCTGAAAATCAGACTTAG-TTTCTTTGAAAGCTCATTT-AAAAATCA
*
1242629 TCAAGAAACTTCTGAAAATCATACTTAGTTTCT
1 TCAAGAAACTTCTGAAAATCAGACTTAGTTTCT
1242662 AAAAAAACAC
Statistics
Matches: 204, Mismatches: 42, Indels: 13
0.79 0.16 0.05
Matches are distributed among these distances:
54 44 0.22
55 123 0.60
56 37 0.18
ACGTcount: A:0.42, C:0.14, G:0.11, T:0.33
Consensus pattern (55 bp):
TCAAGAAACTTCTGAAAATCAGACTTAGTTTCTTTGAAAGCTCATTTAAAAATCA
Found at i:1242545 original size:54 final size:54
Alignment explanation
Indices: 1242279--1242661 Score: 242
Period size: 55 Copynumber: 7.1 Consensus size: 54
1242269 TAGGCTTATC
* * *** * *
1242279 TTCTTTAAAAATTCATTTGAAAA-CATCAATAAACCCCTGAAAATCAGGCTTAGC
1 TTCTTTAAAAACTCATTT-AAAATCATCAAGAAACTTTTGAAAATCAGACTTAGT
* * * * * * *
1242333 TTCTTTCAAAAATTCA--T--CAT-GTCAAGAAACCTCTGAAAATCA-AGCATAAT
1 TTCTTT-AAAAACTCATTTAAAATCATCAAGAAACTTTTGAAAATCAGA-CTTAGT
* * * ** * *
1242383 TTCTTTGAAAGCTCATTTAAAAATCATCAAGAAGCTACTAAAAATCAGATTTAGT
1 TTCTTTAAAAACTCATTT-AAAATCATCAAGAAACTTTTGAAAATCAGACTTAGT
* * *
1242438 TTCTTTAAAAACTCATTGGAAAATCGTCAAGAAACTTTTGAAAATTAGACTTAGT
1 TTCTTTAAAAACTCATT-TAAAATCATCAAGAAACTTTTGAAAATCAGACTTAGT
* * *
1242493 TTCTTTAAAAACCCATTTAAAATCATCAGGAAACTTTTGAAAATCAGGCTTAGT
1 TTCTTTAAAAACTCATTTAAAATCATCAAGAAACTTTTGAAAATCAGACTTAGT
* * * *** * * * *
1242547 TTATGTGAATTGTCATTTAAAAATAATCAAGAAACTTCTAAAAATGAGACTTAGAT
1 TTCTTTAAAAACTCATTT-AAAATCATCAAGAAACTTTTGAAAATCAGACTTAG-T
* * ** * *
1242603 TT-TCTGAAAGGTCATTTAAAAAATCATCAAGAAACTTCTGAAAATCATACTTAGT
1 TTCTTTAAAAACTCATTT--AAAATCATCAAGAAACTTTTGAAAATCAGACTTAGT
1242658 TTCT
1 TTCT
1242662 AAAAAAACAC
Statistics
Matches: 258, Mismatches: 56, Indels: 28
0.75 0.16 0.08
Matches are distributed among these distances:
49 6 0.02
50 29 0.11
51 1 0.00
53 1 0.00
54 51 0.20
55 133 0.52
56 37 0.14
ACGTcount: A:0.41, C:0.15, G:0.11, T:0.33
Consensus pattern (54 bp):
TTCTTTAAAAACTCATTTAAAATCATCAAGAAACTTTTGAAAATCAGACTTAGT
Found at i:1242570 original size:109 final size:110
Alignment explanation
Indices: 1242396--1242659 Score: 262
Period size: 109 Copynumber: 2.4 Consensus size: 110
1242386 TTTGAAAGCT
* * * * * * * *** **
1242396 CATTTAAAAATCATCAAGAAGCTACTAAAAATCAGATTTAGTTTCTTTAAAAACTCATTGGAAAA
1 CATTTAAAAATCATCAAGAAACTTCTGAAAATCAGACTTAGTTTATGTGAATTGTCATTTAAAAA
** * * * *
1242461 TCGTCAAGAAACTTTTGAAAATTAGACTTAG-TTTCTTTAAAAACC
66 TAATCAAGAAACTTCTAAAAATGAGACTTAGATTT-TCTAAAAACC
* * *
1242506 CATTT-AAAATCATCAGGAAACTTTTGAAAATCAGGCTTAGTTTATGTGAATTGTCATTTAAAAA
1 CATTTAAAAATCATCAAGAAACTTCTGAAAATCAGACTTAGTTTATGTGAATTGTCATTTAAAAA
* ***
1242570 TAATCAAGAAACTTCTAAAAATGAGACTTAGATTTTCTGAAAGGT
66 TAATCAAGAAACTTCTAAAAATGAGACTTAGATTTTCTAAAAACC
*
1242615 CATTTAAAAAATCATCAAGAAACTTCTGAAAATCATACTTAGTTT
1 CATTT-AAAAATCATCAAGAAACTTCTGAAAATCAGACTTAGTTT
1242660 CTAAAAAAAC
Statistics
Matches: 122, Mismatches: 29, Indels: 5
0.78 0.19 0.03
Matches are distributed among these distances:
109 80 0.66
110 8 0.07
111 34 0.28
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.33
Consensus pattern (110 bp):
CATTTAAAAATCATCAAGAAACTTCTGAAAATCAGACTTAGTTTATGTGAATTGTCATTTAAAAA
TAATCAAGAAACTTCTAAAAATGAGACTTAGATTTTCTAAAAACC
Found at i:1246272 original size:29 final size:28
Alignment explanation
Indices: 1246197--1246279 Score: 76
Period size: 29 Copynumber: 2.8 Consensus size: 28
1246187 TAAGGGACAT
* *
1246197 AAATAAAAGCTAAAAAAATTAAAGTAAATA
1 AAATAAAAG-GAAAAAAATTAAA-TAAAAA
** **
1246227 AAATGTAAGGACTAAAATTAAATAAAGAA
1 AAATAAAAGGAAAAAAATTAAATAAA-AA
1246256 AAATAAAAGGAAAAAAATTTAAAT
1 AAATAAAAGGAAAAAAA-TTAAAT
1246280 GTGCATAAAA
Statistics
Matches: 41, Mismatches: 10, Indels: 4
0.75 0.18 0.07
Matches are distributed among these distances:
28 4 0.10
29 24 0.59
30 13 0.32
ACGTcount: A:0.67, C:0.02, G:0.10, T:0.20
Consensus pattern (28 bp):
AAATAAAAGGAAAAAAATTAAATAAAAA
Found at i:1246374 original size:29 final size:30
Alignment explanation
Indices: 1246315--1246376 Score: 83
Period size: 29 Copynumber: 2.1 Consensus size: 30
1246305 AAAAGTAGTA
*
1246315 AAAATAAAATGTTAGTAGTTAATATGCAAT
1 AAAATAAAATGTTAGTAGTTAATATGAAAT
*
1246345 AAAATGAAA-GTTAGTAGTTAA-ATTGAAAT
1 AAAATAAAATGTTAGTAGTTAATA-TGAAAT
1246374 AAA
1 AAA
1246377 TAACATAGTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
28 1 0.03
29 20 0.69
30 8 0.28
ACGTcount: A:0.53, C:0.02, G:0.15, T:0.31
Consensus pattern (30 bp):
AAAATAAAATGTTAGTAGTTAATATGAAAT
Found at i:1246674 original size:24 final size:24
Alignment explanation
Indices: 1246642--1246689 Score: 96
Period size: 24 Copynumber: 2.0 Consensus size: 24
1246632 GCTATGTTCT
1246642 TTCATTCATTTTTGAAGAACCAAA
1 TTCATTCATTTTTGAAGAACCAAA
1246666 TTCATTCATTTTTGAAGAACCAAA
1 TTCATTCATTTTTGAAGAACCAAA
1246690 CTTCCCTTTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.38, C:0.17, G:0.08, T:0.38
Consensus pattern (24 bp):
TTCATTCATTTTTGAAGAACCAAA
Found at i:1247063 original size:11 final size:11
Alignment explanation
Indices: 1247047--1247092 Score: 65
Period size: 11 Copynumber: 4.2 Consensus size: 11
1247037 AATGTATGGT
1247047 TGCTGATTTGG
1 TGCTGATTTGG
1247058 TGCTGATTTGG
1 TGCTGATTTGG
**
1247069 TGAGGATTTGG
1 TGCTGATTTGG
*
1247080 TGTTGATTTGG
1 TGCTGATTTGG
1247091 TG
1 TG
1247093 AGGTAGATGG
Statistics
Matches: 31, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
11 31 1.00
ACGTcount: A:0.11, C:0.04, G:0.39, T:0.46
Consensus pattern (11 bp):
TGCTGATTTGG
Found at i:1247076 original size:22 final size:22
Alignment explanation
Indices: 1247051--1247095 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
1247041 TATGGTTGCT
1247051 GATTTGGTGCTGATTTGGTGAG
1 GATTTGGTGCTGATTTGGTGAG
*
1247073 GATTTGGTGTTGATTTGGTGAG
1 GATTTGGTGCTGATTTGGTGAG
1247095 G
1 G
1247096 TAGATGGTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.13, C:0.02, G:0.42, T:0.42
Consensus pattern (22 bp):
GATTTGGTGCTGATTTGGTGAG
Found at i:1247561 original size:44 final size:44
Alignment explanation
Indices: 1247513--1247624 Score: 120
Period size: 44 Copynumber: 2.5 Consensus size: 44
1247503 CCTTTAATTG
1247513 TGTTGATCCACCTCCTTCTGTGATGAAATCTAGAA-A-AATGACAA
1 TGTTGATCCACCTCCTTCTGTGATGAAAT-T-GAACATAATGACAA
* * * ** *
1247557 TGTTGATCCACCTTCTTTTGTGATGGAATTGAACATAATGTTAG
1 TGTTGATCCACCTCCTTCTGTGATGAAATTGAACATAATGACAA
* *
1247601 TGTTGATCTACCTCATTCTGTGAT
1 TGTTGATCCACCTCCTTCTGTGAT
1247625 AGAATCGAGC
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
42 3 0.05
43 2 0.04
44 51 0.91
ACGTcount: A:0.27, C:0.18, G:0.18, T:0.38
Consensus pattern (44 bp):
TGTTGATCCACCTCCTTCTGTGATGAAATTGAACATAATGACAA
Found at i:1247670 original size:88 final size:88
Alignment explanation
Indices: 1247512--1247676 Score: 190
Period size: 88 Copynumber: 1.9 Consensus size: 88
1247502 TCCTTTAATT
* * * * * *
1247512 GTGTTGATCCACCTCCTTCTGTGATGAAATCTAGAAAAATGACAATGTTGATCCACCTTCTTTTG
1 GTGTTGATCCACCTCATTCTGTGATGAAATCGAGAAAAATGACAATGTTGATCCAACTCCTTATA
*
1247577 TGATGGAATTGAACATAATGTTA
66 CGATGGAATTGAACATAATGTTA
* ***
1247600 GTGTTGATCTACCTCATTCTGTGAT-AGAATCGAGCAAAAA-GTTGATGTTGATCCAACTCCTTA
1 GTGTTGATCCACCTCATTCTGTGATGA-AATCGAG-AAAAATGACAATGTTGATCCAACTCCTTA
*
1247663 TACGATGGATTTGA
64 TACGATGGAATTGA
1247677 GCGAAATGAA
Statistics
Matches: 63, Mismatches: 12, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
87 1 0.02
88 57 0.90
89 5 0.08
ACGTcount: A:0.29, C:0.17, G:0.19, T:0.35
Consensus pattern (88 bp):
GTGTTGATCCACCTCATTCTGTGATGAAATCGAGAAAAATGACAATGTTGATCCAACTCCTTATA
CGATGGAATTGAACATAATGTTA
Found at i:1247709 original size:132 final size:131
Alignment explanation
Indices: 1247548--1247904 Score: 450
Period size: 132 Copynumber: 2.7 Consensus size: 131
1247538 AAATCTAGAA
* * * ** * *
1247548 AAATGACAATGTTGATCCACCTTCTTTTGTGATGGAATTGAACATAATGTTAGTGTTGATCTACC
1 AAATGAAAATGTTGATCCACCTCCCTTTGTGATGGAATCAAACA-AATGTTGGTGCTGATCTACC
*
1247613 TCATTCTGTGATAGAATCGAGCAAAAAGTTGATGTTGATCCAACTCCTTATACGATGGATTTGAG
65 TCATTCTGTGATAGAATCGAGCAAAAAGTTGATGCTGATCCAACTCCTTATACGATGGATTTGAG
1247678 CG
130 CG
* * *
1247680 AAATGAAAATATTGATCCACCTCCCTTTGTGATGGAATCAAACAAAATGGTGGTGCT-AGTCTGC
1 AAATGAAAATGTTGATCCACCTCCCTTTGTGATGGAATCAAAC-AAATGTTGGTGCTGA-TCTAC
* * *
1247744 CTCATTCTGTGATAGAATCGAG-AAAAACGTTGATGCTGATCCAATTCCTTATGCGATGTATTTG
64 CTCATTCTGTGATAGAATCGAGCAAAAA-GTTGATGCTGATCCAACTCCTTATACGATGGATTTG
*
1247808 AGTG
128 AGCG
* * * *
1247812 AAATGAAAATGTTGATCCACCTCCTCTTT-TAATGGAATCAAACGAAATATCGGTACTGATCTAC
1 AAATGAAAATGTTGATCCACCTCC-CTTTGTGATGGAATCAAAC-AAATGTTGGTGCTGATCTAC
* *
1247876 ATCATTCTATGATAGAATCGAGCAAAAAG
64 CTCATTCTGTGATAGAATCGAGCAAAAAG
1247905 GTGAACAAGT
Statistics
Matches: 194, Mismatches: 25, Indels: 12
0.84 0.11 0.05
Matches are distributed among these distances:
131 6 0.03
132 177 0.91
133 11 0.06
ACGTcount: A:0.32, C:0.17, G:0.19, T:0.31
Consensus pattern (131 bp):
AAATGAAAATGTTGATCCACCTCCCTTTGTGATGGAATCAAACAAATGTTGGTGCTGATCTACCT
CATTCTGTGATAGAATCGAGCAAAAAGTTGATGCTGATCCAACTCCTTATACGATGGATTTGAGC
G
Found at i:1249170 original size:54 final size:54
Alignment explanation
Indices: 1249094--1249243 Score: 223
Period size: 52 Copynumber: 2.8 Consensus size: 54
1249084 AGTTATCATT
*
1249094 AAGAAACCCCTGAAAATTAGGCTTAGCTTCTTTAAAAATTCATTTGAAAACATC
1 AAGAAACCCCTGAAAATAAGGCTTAGCTTCTTTAAAAATTCATTTGAAAACATC
* * *
1249148 AAGAAACCCTTGAAAATAAGGCTTAG-TTGTTT-CAAATTCATTTGAAAACATC
1 AAGAAACCCCTGAAAATAAGGCTTAGCTTCTTTAAAAATTCATTTGAAAACATC
* *
1249200 AAGAAACCCCTAAAAATCAGGCTTAGCTTCTTTCAAAAATTCAT
1 AAGAAACCCCTGAAAATAAGGCTTAGCTTCTTT-AAAAATTCAT
1249244 CATGGCAAGA
Statistics
Matches: 84, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
52 42 0.50
53 10 0.12
54 24 0.29
55 8 0.10
ACGTcount: A:0.41, C:0.19, G:0.11, T:0.29
Consensus pattern (54 bp):
AAGAAACCCCTGAAAATAAGGCTTAGCTTCTTTAAAAATTCATTTGAAAACATC
Found at i:1249328 original size:55 final size:55
Alignment explanation
Indices: 1249249--1249554 Score: 276
Period size: 55 Copynumber: 5.6 Consensus size: 55
1249239 TTCATCATGG
* * * * *
1249249 CAAGAAACCTCTAAAAATTAGACTTAATTTTTTTGAAAGCTTATTTAAAAATCAT
1 CAAGAAACTTCTAAAAATCAGACTTAGTTTCTTTGAAAGCTCATTTAAAAATCAT
* * ** * ** * *
1249304 AAAGAAACTTCTGAAAAGAAGACTTAGTTTCCTCAAAAACTCATTTGAAAA-CAAT
1 CAAGAAACTTCTAAAAATCAGACTTAGTTTCTTTGAAAGCTCATTTAAAAATC-AT
* * **
1249359 AAAGAAACTTCTAAAAA-CATGACTTAGTTTCTTTAAAAAATCATTT-AAAATCAT
1 CAAGAAACTTCTAAAAATCA-GACTTAGTTTCTTTGAAAGCTCATTTAAAAATCAT
* * * * * *
1249413 CAGGAAACTTTTGAAAATCAGACTTAGTTTCTTTGAAAGGTCATTCAAAAATAAT
1 CAAGAAACTTCTAAAAATCAGACTTAGTTTCTTTGAAAGCTCATTTAAAAATCAT
* * * * * *
1249468 CAAGAAACTTCTAAAAAGCATACTTATTTTATCTGAAAGGTCATTTAAAAAATCAT
1 CAAGAAACTTCTAAAAATCAGACTTAGTTTCTTTGAAAGCTCATTT-AAAAATCAT
* *
1249524 CAAGAAACTTATGAAAATCAGACTTAGTTTC
1 CAAGAAACTTCTAAAAATCAGACTTAGTTTC
1249555 AAAAAAAAGA
Statistics
Matches: 202, Mismatches: 43, Indels: 11
0.79 0.17 0.04
Matches are distributed among these distances:
54 43 0.21
55 126 0.62
56 33 0.16
ACGTcount: A:0.44, C:0.14, G:0.10, T:0.32
Consensus pattern (55 bp):
CAAGAAACTTCTAAAAATCAGACTTAGTTTCTTTGAAAGCTCATTTAAAAATCAT
Found at i:1249442 original size:109 final size:110
Alignment explanation
Indices: 1249291--1249554 Score: 307
Period size: 109 Copynumber: 2.4 Consensus size: 110
1249281 TTGAAAGCTT
* * ** **
1249291 ATTTAAAAATCATAAAGAAACTTCTGAAAAGAAGACTTAGTTTCCTCAAAAACTCATTTGAAAAC
1 ATTTAAAAATCATCAAGAAACTTATGAAAATCAGACTTAGTTTCCTCAAAAACTCATTCAAAAAC
* *
1249356 AATAAAGAAACTTCTAAAAA-CATGACTTAGTTTCTTTAAAAAATC
66 AATAAAGAAACTTCTAAAAAGCAT-ACTTAGTTTATCTAAAAAATC
* * * ** ** *
1249401 ATTT-AAAATCATCAGGAAACTTTTGAAAATCAGACTTAGTTTCTTTGAAAGGTCATTCAAAAAT
1 ATTTAAAAATCATCAAGAAACTTATGAAAATCAGACTTAGTTTCCTCAAAAACTCATTCAAAAAC
* * * **
1249465 AATCAAGAAACTTCTAAAAAGCATACTTATTTTATCTGAAAGGTC
66 AATAAAGAAACTTCTAAAAAGCATACTTAGTTTATCTAAAAAATC
1249510 ATTTAAAAAATCATCAAGAAACTTATGAAAATCAGACTTAGTTTC
1 ATTT-AAAAATCATCAAGAAACTTATGAAAATCAGACTTAGTTTC
1249555 AAAAAAAAGA
Statistics
Matches: 129, Mismatches: 22, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
109 85 0.66
110 7 0.05
111 37 0.29
ACGTcount: A:0.45, C:0.14, G:0.10, T:0.31
Consensus pattern (110 bp):
ATTTAAAAATCATCAAGAAACTTATGAAAATCAGACTTAGTTTCCTCAAAAACTCATTCAAAAAC
AATAAAGAAACTTCTAAAAAGCATACTTAGTTTATCTAAAAAATC
Found at i:1251594 original size:13 final size:13
Alignment explanation
Indices: 1251578--1251662 Score: 57
Period size: 12 Copynumber: 6.2 Consensus size: 13
1251568 GTATTTTTTC
1251578 TTTTTTTTT-TCT
1 TTTTTTTTTCTCT
1251590 TTTTTTTTTCTCT
1 TTTTTTTTTCTCT
* * *
1251603 TTTTCTATTAT-T
1 TTTTTTTTTCTCT
1251615 TTTTCTTTTCTCTCT
1 TTTT-TTTT-TCTCT
*
1251630 TTTTATGTTTTATTCT
1 TTTT-T-TTTT-CTCT
1251646 TCTTCTTTTTTCTCT
1 T-TT-TTTTTTCTCT
1251661 TT
1 TT
1251663 GTGGTGTCAA
Statistics
Matches: 56, Mismatches: 9, Indels: 14
0.71 0.11 0.18
Matches are distributed among these distances:
12 14 0.25
13 13 0.23
14 3 0.05
15 11 0.20
16 11 0.20
17 3 0.05
18 1 0.02
ACGTcount: A:0.05, C:0.15, G:0.01, T:0.79
Consensus pattern (13 bp):
TTTTTTTTTCTCT
Found at i:1251645 original size:25 final size:25
Alignment explanation
Indices: 1251595--1251658 Score: 71
Period size: 25 Copynumber: 2.6 Consensus size: 25
1251585 TTTCTTTTTT
*
1251595 TTTTCTCTTTTTCTATTATTTTTTC
1 TTTTCTCTTTTTCTATTATTTATTC
1251620 TTTTCTCTCTTTT-TATGT-TTTATTC
1 TTTTCTCT-TTTTCTAT-TATTTATTC
1251645 TTCTTCT-TTTTTCT
1 TT-TTCTCTTTTTCT
1251659 CTTTGTGGTG
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
24 4 0.12
25 21 0.62
26 9 0.26
ACGTcount: A:0.06, C:0.17, G:0.02, T:0.75
Consensus pattern (25 bp):
TTTTCTCTTTTTCTATTATTTATTC
Found at i:1253924 original size:59 final size:59
Alignment explanation
Indices: 1253861--1253974 Score: 192
Period size: 59 Copynumber: 1.9 Consensus size: 59
1253851 AATATATGGA
* ** *
1253861 TAAGTGTCCTATCGAACCCTCCTAGTCGTAATGAAAGGGCAAACTCGATAATATGACTC
1 TAAGTGTCCTATCGAACCCTCCTAGTCGCAATGAAAAAGAAAACTCGATAATATGACTC
1253920 TAAGTGTCCTATCGAACCCTCCTAGTCGCAATGAAAAAGAAAACTCGATAATATG
1 TAAGTGTCCTATCGAACCCTCCTAGTCGCAATGAAAAAGAAAACTCGATAATATG
1253975 GCTCCAACCA
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
59 51 1.00
ACGTcount: A:0.35, C:0.23, G:0.18, T:0.25
Consensus pattern (59 bp):
TAAGTGTCCTATCGAACCCTCCTAGTCGCAATGAAAAAGAAAACTCGATAATATGACTC
Found at i:1253989 original size:59 final size:59
Alignment explanation
Indices: 1253867--1253989 Score: 165
Period size: 59 Copynumber: 2.1 Consensus size: 59
1253857 TGGATAAGTG
* ** * * ***
1253867 TCCTATCGAACCCTCCTAGTCGTAATGAAAGGGCAAACTCGATAATATGACTCTAAGTG
1 TCCTATCGAACCCTCCTAGTCGCAATGAAAAAGAAAACTCGATAATATGACTCCAACCA
*
1253926 TCCTATCGAACCCTCCTAGTCGCAATGAAAAAGAAAACTCGATAATATGGCTCCAACCA
1 TCCTATCGAACCCTCCTAGTCGCAATGAAAAAGAAAACTCGATAATATGACTCCAACCA
1253985 TCCTA
1 TCCTA
1253990 GTCGCGATGA
Statistics
Matches: 55, Mismatches: 9, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
59 55 1.00
ACGTcount: A:0.34, C:0.27, G:0.15, T:0.24
Consensus pattern (59 bp):
TCCTATCGAACCCTCCTAGTCGCAATGAAAAAGAAAACTCGATAATATGACTCCAACCA
Found at i:1254255 original size:43 final size:47
Alignment explanation
Indices: 1254203--1254309 Score: 132
Period size: 51 Copynumber: 2.3 Consensus size: 47
1254193 ATAACTAATG
*
1254203 AATAAAATAATAACAAACT-AAAT-ATTTTTTAACT-C-TAATTCCT
1 AATAAAATAATAACAAACTAAAATAATATTTTAACTACTTAATTCCT
*
1254246 AATAAAATAATAATAAACTGAAAATAATATTTTAACTCAACCTTAATTCCT
1 AATAAAATAATAACAAACT-AAAATAATATTTTAACT--A-CTTAATTCCT
1254297 AATAAAATAATAA
1 AATAAAATAATAA
1254310 ATATAATCCT
Statistics
Matches: 54, Mismatches: 2, Indels: 8
0.84 0.03 0.12
Matches are distributed among these distances:
43 18 0.33
45 4 0.07
46 10 0.19
50 1 0.02
51 21 0.39
ACGTcount: A:0.53, C:0.12, G:0.01, T:0.34
Consensus pattern (47 bp):
AATAAAATAATAACAAACTAAAATAATATTTTAACTACTTAATTCCT
Found at i:1256193 original size:44 final size:43
Alignment explanation
Indices: 1256126--1256379 Score: 364
Period size: 44 Copynumber: 5.8 Consensus size: 43
1256116 TTTTACCGAA
*
1256126 ATAAATGAAAATGCATAACGGTGCATTATTAGCAGAAAGATGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAG-TGCC
* * * *
1256170 ATATATGAAAATGCATAATGGTGCATTATTGGCAGAACTGTTCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAA-AGTGCC
1256214 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAATGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAA-GTGCC
* * *
1256258 ATAAATGAAAATGCATAACGATGCATTATTGTCAAAAAGGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAA-GTGCC
*
1256302 ATAAATGAAAATGCATAACCGTGCATTATTGGCAGAAAGGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAA-GTGCC
* *
1256346 ATAAATGAAAAGGCATAACAGTGCATTATTGGCA
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCA
1256380 TAAAAAGTGC
Statistics
Matches: 189, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
44 188 0.99
45 1 0.01
ACGTcount: A:0.40, C:0.14, G:0.21, T:0.25
Consensus pattern (43 bp):
ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGTGCC
Found at i:1262171 original size:22 final size:21
Alignment explanation
Indices: 1262139--1262180 Score: 66
Period size: 22 Copynumber: 2.0 Consensus size: 21
1262129 TTGAGTGTTA
1262139 TAAAGGCATAAGGAATGGGTTG
1 TAAAGGCATAAGGAA-GGGTTG
*
1262161 TAAAGGGATAAGGAAGGGTT
1 TAAAGGCATAAGGAAGGGTT
1262181 AAAGAGAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.26
22 14 0.74
ACGTcount: A:0.38, C:0.02, G:0.38, T:0.21
Consensus pattern (21 bp):
TAAAGGCATAAGGAAGGGTTG
Found at i:1263256 original size:44 final size:44
Alignment explanation
Indices: 1263207--1263419 Score: 266
Period size: 44 Copynumber: 4.9 Consensus size: 44
1263197 TGTTACCAAA
*
1263207 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGTC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
* * **
1263251 ATAAATGAAAATGCATAACGATGCATTATTGACAGAACTGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
* * * **
1263295 ATAAATGAAAATGCATAGCGGTGCATAATTGGCATAAAAATGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
* * *
1263339 ATAAATAAAAATACATAACGATGCATTATTGGCAGAAAGGTG-C
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
* * **
1263382 ACAAACGAAAATGCATAGTGGTGCATTATTGGCAGAAA
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAA
1263420 ATATAGGTTT
Statistics
Matches: 141, Mismatches: 28, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
43 32 0.23
44 109 0.77
ACGTcount: A:0.42, C:0.13, G:0.21, T:0.23
Consensus pattern (44 bp):
ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGCC
Found at i:1263304 original size:88 final size:87
Alignment explanation
Indices: 1263207--1263420 Score: 293
Period size: 88 Copynumber: 2.4 Consensus size: 87
1263197 TGTTACCAAA
* ** * * *
1263207 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAGGTGTCATAAATGAAAATGCATAACGA
1 ATAAATGAAAATGCATAGCGGTGCATTATTGGCAGAAAAATGCCATAAATAAAAATACATAACGA
**
1263272 TGCATTATTGACAGAACTGTGCC
66 TGCATTATTGACAGAAAGGTG-C
* *
1263295 ATAAATGAAAATGCATAGCGGTGCATAATTGGCATAAAAATGCCATAAATAAAAATACATAACGA
1 ATAAATGAAAATGCATAGCGGTGCATTATTGGCAGAAAAATGCCATAAATAAAAATACATAACGA
*
1263360 TGCATTATTGGCAGAAAGGTGC
66 TGCATTATTGACAGAAAGGTGC
* * *
1263382 ACAAACGAAAATGCATAGTGGTGCATTATTGGCAGAAAA
1 ATAAATGAAAATGCATAGCGGTGCATTATTGGCAGAAAA
1263421 TATAGGTTTT
Statistics
Matches: 110, Mismatches: 16, Indels: 1
0.87 0.13 0.01
Matches are distributed among these distances:
87 35 0.32
88 75 0.68
ACGTcount: A:0.43, C:0.13, G:0.21, T:0.23
Consensus pattern (87 bp):
ATAAATGAAAATGCATAGCGGTGCATTATTGGCAGAAAAATGCCATAAATAAAAATACATAACGA
TGCATTATTGACAGAAAGGTGC
Found at i:1265063 original size:2 final size:2
Alignment explanation
Indices: 1265056--1265086 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
1265046 TACTTGTCAG
1265056 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1265087 GAAGTTTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1267081 original size:27 final size:27
Alignment explanation
Indices: 1267051--1267146 Score: 120
Period size: 27 Copynumber: 3.5 Consensus size: 27
1267041 AGAATTATAG
1267051 AAATACCCCTAAACTGTAAAATGGCCA
1 AAATACCCCTAAACTGTAAAATGGCCA
* * *
1267078 AAATACCCCTAAAGTATAAAATAGCCA
1 AAATACCCCTAAACTGTAAAATGGCCA
* *
1267105 AAATGCCCCTAAAGTGTAAAATGGCCTA
1 AAATACCCCTAAACTGTAAAATGGCC-A
* *
1267133 AAGTACCTCTAAAC
1 AAATACCCCTAAAC
1267147 CCTAGAATTT
Statistics
Matches: 58, Mismatches: 10, Indels: 1
0.84 0.14 0.01
Matches are distributed among these distances:
27 47 0.81
28 11 0.19
ACGTcount: A:0.45, C:0.24, G:0.11, T:0.20
Consensus pattern (27 bp):
AAATACCCCTAAACTGTAAAATGGCCA
Found at i:1276762 original size:6 final size:6
Alignment explanation
Indices: 1276751--1276799 Score: 80
Period size: 6 Copynumber: 8.2 Consensus size: 6
1276741 GACACGTATT
* *
1276751 ACCACG ACCACG ACCACG ACCTCG ACCTCG ACCACG ACCACG ACCACG
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG
1276799 A
1 A
1276800 GCCGAGCCGA
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
6 41 1.00
ACGTcount: A:0.31, C:0.49, G:0.16, T:0.04
Consensus pattern (6 bp):
ACCACG
Found at i:1276807 original size:5 final size:5
Alignment explanation
Indices: 1276797--1276850 Score: 63
Period size: 5 Copynumber: 10.8 Consensus size: 5
1276787 ACCACGACCA
* * * * *
1276797 CGAGC CGAGC CGAGC CGAGC CGTGC CGTGC CGTGC CGTGC CGAGC CGAGA
1 CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC
1276847 CGAG
1 CGAG
1276851 ACGGACGGAC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 46 1.00
ACGTcount: A:0.15, C:0.37, G:0.41, T:0.07
Consensus pattern (5 bp):
CGAGC
Found at i:1282721 original size:6 final size:6
Alignment explanation
Indices: 1282710--1282746 Score: 65
Period size: 6 Copynumber: 6.2 Consensus size: 6
1282700 GACACGTATT
*
1282710 ACCACG ACCACG ACCACG ACCACG ACCTCG ACCACG A
1 ACCACG ACCACG ACCACG ACCACG ACCACG ACCACG A
1282747 GCCGAGCCGA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
6 29 1.00
ACGTcount: A:0.32, C:0.49, G:0.16, T:0.03
Consensus pattern (6 bp):
ACCACG
Found at i:1282754 original size:5 final size:5
Alignment explanation
Indices: 1282744--1282782 Score: 51
Period size: 5 Copynumber: 7.8 Consensus size: 5
1282734 ACCTCGACCA
* * *
1282744 CGAGC CGAGC CGAGC CGTGC CGTGC CGAGC CGAGA CGAG
1 CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAG
1282783 ACGGACGGAC
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.18, C:0.36, G:0.41, T:0.05
Consensus pattern (5 bp):
CGAGC
Found at i:1287780 original size:6 final size:6
Alignment explanation
Indices: 1287769--1287793 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
1287759 GAAACGTATT
1287769 ACCACG ACCACG ACCACG ACCACG A
1 ACCACG ACCACG ACCACG ACCACG A
1287794 GCCGAGCCGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.36, C:0.48, G:0.16, T:0.00
Consensus pattern (6 bp):
ACCACG
Found at i:1287801 original size:5 final size:5
Alignment explanation
Indices: 1287791--1287844 Score: 81
Period size: 5 Copynumber: 10.8 Consensus size: 5
1287781 ACCACGACCA
* * *
1287791 CGAGC CGAGC CGAGC CGAGC CGTGC CGTGC CGAGC CGAGC CGAGC CGAGA
1 CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC CGAGC
1287841 CGAG
1 CGAG
1287845 ACGGACGGAC
Statistics
Matches: 46, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 46 1.00
ACGTcount: A:0.19, C:0.37, G:0.41, T:0.04
Consensus pattern (5 bp):
CGAGC
Found at i:1288779 original size:28 final size:28
Alignment explanation
Indices: 1288748--1288803 Score: 103
Period size: 28 Copynumber: 2.0 Consensus size: 28
1288738 TTTATATAAC
1288748 TTTAATAAAATTTATACACAAAGAATTT
1 TTTAATAAAATTTATACACAAAGAATTT
*
1288776 TTTAATAAAATTTATACACAAATAATTT
1 TTTAATAAAATTTATACACAAAGAATTT
1288804 AATATATGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.50, C:0.07, G:0.02, T:0.41
Consensus pattern (28 bp):
TTTAATAAAATTTATACACAAAGAATTT
Found at i:1292331 original size:16 final size:16
Alignment explanation
Indices: 1292302--1292335 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
1292292 CTCAATGTAG
1292302 TTTCATGCTTGAAACTA
1 TTTCATGCTTGAAA-TA
1292319 TTTCATG-TTGAAATA
1 TTTCATGCTTGAAATA
1292334 TT
1 TT
1292336 CTTGAGGGGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 4 0.24
16 6 0.35
17 7 0.41
ACGTcount: A:0.29, C:0.12, G:0.12, T:0.47
Consensus pattern (16 bp):
TTTCATGCTTGAAATA
Found at i:1294029 original size:27 final size:28
Alignment explanation
Indices: 1293969--1294031 Score: 71
Period size: 27 Copynumber: 2.4 Consensus size: 28
1293959 TATATCATAA
*
1293969 ATAT-TTATACACAATATTTTTAAAAAG
1 ATATATTATACACAATATTTATAAAAAG
*
1293996 ATA-ATTATACAC-ATA-TTATAAAAGAT
1 ATATATTATACACAATATTTATAAAA-AG
1294022 ATATATTATA
1 ATATATTATA
1294032 AATAATATAT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
25 7 0.23
26 7 0.23
27 17 0.55
ACGTcount: A:0.51, C:0.06, G:0.03, T:0.40
Consensus pattern (28 bp):
ATATATTATACACAATATTTATAAAAAG
Found at i:1294039 original size:14 final size:16
Alignment explanation
Indices: 1294008--1294042 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
1293998 AATTATACAC
1294008 ATATTATAAAAGATAT
1 ATATTATAAAAGATAT
1294024 ATATTATAAATA-ATAT
1 ATATTATAAA-AGATAT
1294040 ATA
1 ATA
1294043 CGTATAATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 17 0.94
17 1 0.06
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (16 bp):
ATATTATAAAAGATAT
Found at i:1294157 original size:26 final size:25
Alignment explanation
Indices: 1294128--1294176 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
1294118 ATATAATTAG
*
1294128 AAAATATAATAAATTTTGACTAATCA
1 AAAAT-TAATAAATCTTGACTAATCA
* *
1294154 AAAATTTATAAGTCTTGACTAAT
1 AAAATTAATAAATCTTGACTAAT
1294177 TTAAATTTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
25 15 0.75
26 5 0.25
ACGTcount: A:0.49, C:0.08, G:0.06, T:0.37
Consensus pattern (25 bp):
AAAATTAATAAATCTTGACTAATCA
Found at i:1297198 original size:15 final size:15
Alignment explanation
Indices: 1297178--1297218 Score: 64
Period size: 15 Copynumber: 2.7 Consensus size: 15
1297168 GAGCTTGAGC
*
1297178 TCGAGTCGAGTTCAT
1 TCGAGTCGAATTCAT
1297193 TCGAGTCGAATTCAT
1 TCGAGTCGAATTCAT
*
1297208 TCAAGTCGAAT
1 TCGAGTCGAAT
1297219 ATTTATCGAA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.32
Consensus pattern (15 bp):
TCGAGTCGAATTCAT
Found at i:1304349 original size:21 final size:21
Alignment explanation
Indices: 1304325--1304368 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
1304315 GAATTCCTGA
1304325 AGAA-AATAGAGCTTGAGGTTG
1 AGAAGAAT-GAGCTTGAGGTTG
* *
1304346 AGAAGAATGAGGTTGGGGTTG
1 AGAAGAATGAGCTTGAGGTTG
1304367 AG
1 AG
1304369 GTTGGGGCTA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 17 0.85
22 3 0.15
ACGTcount: A:0.34, C:0.02, G:0.41, T:0.23
Consensus pattern (21 bp):
AGAAGAATGAGCTTGAGGTTG
Found at i:1308631 original size:153 final size:156
Alignment explanation
Indices: 1308337--1308648 Score: 594
Period size: 153 Copynumber: 2.0 Consensus size: 156
1308327 ATTTGATTAG
1308337 ACGTTCTCCATATATAACTTTGACACTCCAAAATAGTGCCTTGTCATTAAGTCCATGTGTGGCTA
1 ACGTTCTCCATATATAACTTTGACACTCCAAAATAGTGCCTTGTCATTAAGTCCATGTGTGGCTA
1308402 CATATATTTTTTTCTTCTTCGGAACACTTGTAGTCATGGAATATGAATTCCATCTTGGTGTCCCA
66 CATATATTTTTTTCTTCTTCGGAACACTTGTAGTCATGGAATATGAATTCCATCTTGGTGTCCCA
1308467 CTCATAGTAGGTGTGTGGA-TTCCAC
131 CTCATAGTAGGTGTGTGGACTTCCAC
1308492 ACGTT-TCCATATAT-ACTTTGACACTCCAAAATAGTGCCTTGTCATTAAGTCCATGTGTGGCTA
1 ACGTTCTCCATATATAACTTTGACACTCCAAAATAGTGCCTTGTCATTAAGTCCATGTGTGGCTA
1308555 CATATATTTTTTTCTTCTTCGGAACACTTGTAGTCATGGAATATGAATTCCATCTTGGTGTCCCA
66 CATATATTTTTTTCTTCTTCGGAACACTTGTAGTCATGGAATATGAATTCCATCTTGGTGTCCCA
1308620 CTCATAGTAGGTGTGTGGATCTTCCAC
131 CTCATAGTAGGTGTGTGGA-CTTCCAC
1308647 AC
1 AC
1308649 CATAGAACTA
Statistics
Matches: 155, Mismatches: 0, Indels: 4
0.97 0.00 0.03
Matches are distributed among these distances:
153 133 0.86
154 9 0.06
155 13 0.08
ACGTcount: A:0.24, C:0.21, G:0.17, T:0.37
Consensus pattern (156 bp):
ACGTTCTCCATATATAACTTTGACACTCCAAAATAGTGCCTTGTCATTAAGTCCATGTGTGGCTA
CATATATTTTTTTCTTCTTCGGAACACTTGTAGTCATGGAATATGAATTCCATCTTGGTGTCCCA
CTCATAGTAGGTGTGTGGACTTCCAC
Found at i:1312071 original size:30 final size:30
Alignment explanation
Indices: 1312038--1312094 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
1312028 TATATTTATA
*
1312038 AAAAAAAAACC-TAATTTCTCTTAAATTAC
1 AAAAAAAAACCTTAATTTCTCTAAAATTAC
* *
1312067 AAAAAGAAACCTTGATTTCTCTAAAATT
1 AAAAAAAAACCTTAATTTCTCTAAAATT
1312095 GAAAAAACTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 10 0.42
30 14 0.58
ACGTcount: A:0.49, C:0.16, G:0.04, T:0.32
Consensus pattern (30 bp):
AAAAAAAAACCTTAATTTCTCTAAAATTAC
Found at i:1312101 original size:30 final size:28
Alignment explanation
Indices: 1312036--1312101 Score: 78
Period size: 29 Copynumber: 2.3 Consensus size: 28
1312026 ATTATATTTA
*
1312036 TAAAAAAAAAACCTAATTTCTCTTAAAT
1 TAAAAAAAAAACCTAATTTCTCTAAAAT
* *
1312064 TACAAAAAGAAACCTTGATTTCTCTAAAAT
1 TA-AAAAAAAAACC-TAATTTCTCTAAAAT
*
1312094 TGAAAAAA
1 TAAAAAAA
1312102 CTCCAAATCC
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
28 2 0.06
29 15 0.48
30 14 0.45
ACGTcount: A:0.53, C:0.14, G:0.05, T:0.29
Consensus pattern (28 bp):
TAAAAAAAAAACCTAATTTCTCTAAAAT
Found at i:1313285 original size:2 final size:2
Alignment explanation
Indices: 1313278--1313306 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
1313268 AGAAGAATTC
1313278 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1313307 ATTTCATTTC
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:1314052 original size:38 final size:36
Alignment explanation
Indices: 1314010--1314142 Score: 137
Period size: 36 Copynumber: 3.6 Consensus size: 36
1314000 TTTGAAAATG
*
1314010 TATATAATATATATAGTTTTAAAAATATTTTTTGAAAC
1 TATAT-ATATATATAGTTTTTAAAATA-TTTTTGAAAC
* * * *
1314048 TATATA-GTATATAGTTTTTAAAACATTTTAGAAAA
1 TATATATATATATAGTTTTTAAAATATTTTTGAAAC
1314083 T-TATATAATATATAGTTTTTAAAATCATTTTTGAAAAC
1 TATATAT-ATATATAGTTTTTAAAAT-ATTTTTG-AAAC
*
1314121 T-TATATAATATATTGTTTTTAA
1 TATATAT-ATATATAGTTTTTAA
1314143 TTTTTTTTAA
Statistics
Matches: 81, Mismatches: 10, Indels: 8
0.82 0.10 0.08
Matches are distributed among these distances:
34 4 0.05
35 9 0.11
36 32 0.40
37 7 0.09
38 29 0.36
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.48
Consensus pattern (36 bp):
TATATATATATATAGTTTTTAAAATATTTTTGAAAC
Found at i:1314076 original size:36 final size:36
Alignment explanation
Indices: 1313973--1314306 Score: 203
Period size: 37 Copynumber: 8.9 Consensus size: 36
1313963 TGAAAATACT
* *
1313973 TATAATATACATAATTTTTGAAAACA-TTTTGAAAATGTA
1 TATAATAT--ATAGTTTTT-AAAACATTTTTGAAAA-CTA
* *
1314012 TATAATATATATAGTTTTAAAAATATTTTTTG-AAACTA
1 TAT-A-ATATATAGTTTTTAAAACA-TTTTTGAAAACTA
* * *
1314050 TATAGTATATAGTTTTTAAAACATTTTAGAAAATTA
1 TATAATATATAGTTTTTAAAACATTTTTGAAAACTA
1314086 TATAATATATAGTTTTTAAAATCATTTTTGAAAACTTA
1 TATAATATATAGTTTTTAAAA-CATTTTTGAAAAC-TA
* *** *
1314124 TATAATATATTGTTTTT-AATTTTTTTTAAAAAAAACATTTA
1 TATAATATATAGTTTTTAAAACATTTTT---GAAAAC---TA
* * * * *
1314165 AATATTATATAATTTTTGAAAAACA--TTTAAAAATATA
1 TATAATATATAGTTTTT--AAAACATTTTTGAAAA-CTA
* * * *
1314202 TATAATATATAATTTTTAAACCGTTTCTGAAAA-TA
1 TATAATATATAGTTTTTAAAACATTTTTGAAAACTA
* * * * *
1314237 TATATTATAAAGTTTTTAAAACGTTTTTAAAAACATG
1 TATAATATATAGTTTTTAAAACATTTTTGAAAAC-TA
*
1314274 TATAATATATAGTTTTTAAAAGCATTTTGGAAA
1 TATAATATATAGTTTTTAAAA-CATTTTTGAAA
1314307 TTTATATATT
Statistics
Matches: 231, Mismatches: 43, Indels: 43
0.73 0.14 0.14
Matches are distributed among these distances:
35 38 0.16
36 46 0.20
37 57 0.25
38 36 0.16
39 23 0.10
40 6 0.03
41 20 0.09
42 3 0.01
44 2 0.01
ACGTcount: A:0.45, C:0.04, G:0.06, T:0.45
Consensus pattern (36 bp):
TATAATATATAGTTTTTAAAACATTTTTGAAAACTA
Found at i:1314114 original size:72 final size:72
Alignment explanation
Indices: 1313973--1314314 Score: 244
Period size: 72 Copynumber: 4.5 Consensus size: 72
1313963 TGAAAATACT
* *
1313973 TATAATATACATAATTTTTGAAAACATTTTGAAAATGTATATAATATATATAGTTTTAAAAAT-A
1 TATAATAT--ATAGTTTTT-AAAACATTTTGAAAAT-TATAT-A-ATATATAGTTTTTAAAATCA
*
1314037 TTTTTTGAAAC-TA
60 -TTTTTAAAACATA
*
1314050 TATAGTATATAGTTTTTAAAACATTTTAGAAAATTATATAATATATAGTTTTTAAAATCATTTTT
1 TATAATATATAGTTTTTAAAACATTTT-GAAAATTATATAATATATAGTTTTTAAAATCATTTTT
*
1314115 GAAAACTTA
65 -AAAACATA
* **** * * * * *
1314124 TATAATATATTGTTTTTAATTTTTTTTAAAAAAAACATTTAAATATTATATAATTTTTGAAAAAC
1 TATAATATATAGTTTTTAAAACATTTT----GAAA-A-TTATATAATATATAGTTTTT-AAAATC
* *
1314189 A-TTTAAAAATATA
59 ATTTTTAAAACATA
* * * * * *
1314202 TATAATATATAATTTTTAAACCGTTTCTGAAAA-TATATATTATAAAGTTTTTAAAA-CGTTTTT
1 TATAATATATAGTTTTTAAAACATTT-TGAAAATTATATAATATATAGTTTTTAAAATCATTTTT
*
1314265 AAAAACATG
65 -AAAACATA
*
1314274 TATAATATATAGTTTTTAAAAGCATTTTGGAAATTTATATA
1 TATAATATATAGTTTTTAAAA-CATTTT-GAAAATTATATA
1314315 TTACATATTT
Statistics
Matches: 213, Mismatches: 36, Indels: 35
0.75 0.13 0.12
Matches are distributed among these distances:
70 1 0.00
71 7 0.03
72 64 0.30
73 14 0.07
74 45 0.21
75 17 0.08
77 11 0.05
78 27 0.13
79 21 0.10
80 6 0.03
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.45
Consensus pattern (72 bp):
TATAATATATAGTTTTTAAAACATTTTGAAAATTATATAATATATAGTTTTTAAAATCATTTTTA
AAACATA
Found at i:1314975 original size:16 final size:16
Alignment explanation
Indices: 1314954--1314986 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1314944 GCAAATACAG
1314954 AAACAAA-ACCCAAAAA
1 AAACAAATA-CCAAAAA
1314970 AAACAAATACCAAAAA
1 AAACAAATACCAAAAA
1314986 A
1 A
1314987 TACCGAAGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 15 0.94
17 1 0.06
ACGTcount: A:0.76, C:0.21, G:0.00, T:0.03
Consensus pattern (16 bp):
AAACAAATACCAAAAA
Found at i:1315214 original size:12 final size:12
Alignment explanation
Indices: 1315197--1315226 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
1315187 CCACCGCCGG
1315197 CGGTGGCCGGCA
1 CGGTGGCCGGCA
*
1315209 CGGTGGCCGGCG
1 CGGTGGCCGGCA
1315221 CGGTGG
1 CGGTGG
1315227 AGAGGCCACC
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.03, C:0.30, G:0.57, T:0.10
Consensus pattern (12 bp):
CGGTGGCCGGCA
Found at i:1321342 original size:165 final size:163
Alignment explanation
Indices: 1320885--1321512 Score: 1040
Period size: 165 Copynumber: 3.8 Consensus size: 163
1320875 GCTCAAGGCC
* *
1320885 AGAAGGGCTATCTGCCACCAAGACCTTCGAGTTCGACTACGCTCAGCTCTAAGGCACATCATTTG
1 AGAAGGGTTATCTGCCACCAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTG
*
1320950 CAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTC
66 CAGAATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTC
* * * * *
1321015 GAGGGCACATCATTTACAGCATAACTCAAGGCT
131 GAGGGCACACCATTTGCAGCATAACTAAAGTCA
*
1321048 AGAAGGGTTATCTGTGACCACCAAGACCTTTGAGTTCGACTACGCTCAGCTCCAAGGCACATCAT
1 AGAAGGGTTATC--TG-CCACCAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCAT
*
1321113 TTGCAGAATAGCTTAAGTCGAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGC
63 TTGCAGAATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGC
1321178 TTCGAGGGCACACCATTTGCAGCATAACTAAAGTCA
128 TTCGAGGGCACACCATTTGCAGCATAACTAAAGTCA
*
1321214 AGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATT
1 AGAAGGGTTATCTGCC-ACC-AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
*
1321279 TGCAGTATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCT
64 TGCAGAATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCT
*
1321344 TCGAGGGCACACCATTTGCAGCATAACTTAAGTCA
129 TCGAGGGCACACCATTTGCAGCATAACTAAAGTCA
*
1321379 AGAAGGGTTATCTGCCAACCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCATATCATT
1 AGAAGGGTTATCTGCC-ACC-AAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
* * *
1321444 TGCAGTATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGACTCCCGAGTTCGATTACACTCAACT
64 TGCAGAATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCT
1321509 TCGA
129 TCGA
1321513 AGTCATATCA
Statistics
Matches: 445, Mismatches: 15, Indels: 8
0.95 0.03 0.02
Matches are distributed among these distances:
163 13 0.03
164 5 0.01
165 273 0.61
166 154 0.35
ACGTcount: A:0.29, C:0.27, G:0.21, T:0.23
Consensus pattern (163 bp):
AGAAGGGTTATCTGCCACCAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTTG
CAGAATAGCTTAAGTCAAGAAGGGCTATCTGCCAAAGACCCCCGAGTTCGATTACACTCAGCTTC
GAGGGCACACCATTTGCAGCATAACTAAAGTCA
Found at i:1322234 original size:38 final size:36
Alignment explanation
Indices: 1322192--1322321 Score: 131
Period size: 36 Copynumber: 3.5 Consensus size: 36
1322182 TTTGAAAATG
*
1322192 TATATAATATATATAGTTTTAAAAATATTTTTTGAAAC
1 TATAT-ATATATATAGTTTTTAAAATA-TTTTTGAAAC
* * * *
1322230 TATATA-GTATATAGTTTTTAAAACATTTTAGAAAA
1 TATATATATATATAGTTTTTAAAATATTTTTGAAAC
1322265 T-TATATAATATATAGTTTTTAAAATCATTTTTGAAAAC
1 TATATAT-ATATATAGTTTTTAAAAT-ATTTTTG-AAAC
*
1322303 T-TATATAATATATTGTTTT
1 TATATAT-ATATATAGTTTT
1322322 GAATTTTTTT
Statistics
Matches: 78, Mismatches: 10, Indels: 8
0.81 0.10 0.08
Matches are distributed among these distances:
34 4 0.05
35 9 0.12
36 32 0.41
37 7 0.09
38 26 0.33
ACGTcount: A:0.42, C:0.03, G:0.06, T:0.48
Consensus pattern (36 bp):
TATATATATATATAGTTTTTAAAATATTTTTGAAAC
Found at i:1322255 original size:74 final size:75
Alignment explanation
Indices: 1322155--1322496 Score: 210
Period size: 72 Copynumber: 4.5 Consensus size: 75
1322145 TGAAAATACT
*
1322155 TATAATATACATAATTTTTGAAAACATTTT-GAAAATGTATATAATATATATAGTTTTAAAAAT-
1 TATAATAT--ATAGTTTTTGAAAACATTTTAGAAAAT-TATAT-A-ATATATAGTTTTAAAAATC
1322218 ATTTTTTG-AAAC-TA
61 A-TTTTTGAAAACTTA
* *
1322232 TATAGTATATAGTTTTT-AAAACATTTTAGAAAATTATATAATATATAGTTTTTAAAATCATTTT
1 TATAATATATAGTTTTTGAAAACATTTTAGAAAATTATATAATATATAGTTTTAAAAATCATTTT
1322296 TGAAAACTTA
66 TGAAAACTTA
* **** * * * *
1322306 TATAATATATTG-TTTTGAATTTTTTTTAAAAAAAACATTTAAATATTATATAATTTTTGAAAAA
1 TATAATATATAGTTTTTGAAAACATTTT---AGAAA-A-TTATATAATATAT-AGTTTT-AAAAA
*
1322370 -CA--TTT-AAAAATATA
59 TCATTTTTGAAAACT-TA
* * * * * * *
1322384 TATAATATATAATTTTT-AAACCGTTTCT-GAAAA-TATATATTATAAAGTTTTTAAAA-CGTTT
1 TATAATATATAGTTTTTGAAAACATTT-TAGAAAATTATATAATATATAGTTTTAAAAATCATTT
* * *
1322445 TTAAAAACATG
65 TTGAAAACTTA
* *
1322456 TATAATATATAGTTTTT-AAAAGCATTTTGGAAATTTATATA
1 TATAATATATAGTTTTTGAAAA-CATTTTAGAAAATTATATA
1322497 TTACATATTT
Statistics
Matches: 210, Mismatches: 34, Indels: 45
0.73 0.12 0.16
Matches are distributed among these distances:
70 5 0.02
71 5 0.02
72 57 0.27
73 22 0.10
74 40 0.19
75 17 0.08
77 16 0.08
78 21 0.10
79 16 0.08
80 7 0.03
81 4 0.02
ACGTcount: A:0.44, C:0.04, G:0.06, T:0.45
Consensus pattern (75 bp):
TATAATATATAGTTTTTGAAAACATTTTAGAAAATTATATAATATATAGTTTTAAAAATCATTTT
TGAAAACTTA
Found at i:1322258 original size:36 final size:36
Alignment explanation
Indices: 1322155--1322488 Score: 194
Period size: 37 Copynumber: 8.9 Consensus size: 36
1322145 TGAAAATACT
* *
1322155 TATAATATACATAATTTTTGAAAACA-TTTTGAAAATGTA
1 TATAATAT--ATAGTTTTT-AAAACATTTTTGAAAA-CTA
* *
1322194 TATAATATATATAGTTTTAAAAATATTTTTTG-AAACTA
1 TAT-A-ATATATAGTTTTTAAAACA-TTTTTGAAAACTA
* * *
1322232 TATAGTATATAGTTTTTAAAACATTTTAGAAAATTA
1 TATAATATATAGTTTTTAAAACATTTTTGAAAACTA
1322268 TATAATATATAGTTTTTAAAATCATTTTTGAAAACTTA
1 TATAATATATAGTTTTTAAAA-CATTTTTGAAAAC-TA
* * *** *
1322306 TATAATATATTG-TTTTGAATTTTTTTTAAAAAAAACATTTA
1 TATAATATATAGTTTTTAAAACATTTTT---GAAAAC---TA
* * * * *
1322347 AATATTATATAATTTTTGAAAAACA--TTTAAAAATATA
1 TATAATATATAGTTTTT--AAAACATTTTTGAAAA-CTA
* * * *
1322384 TATAATATATAATTTTTAAACCGTTTCTGAAAA-TA
1 TATAATATATAGTTTTTAAAACATTTTTGAAAACTA
* * * * *
1322419 TATATTATAAAGTTTTTAAAACGTTTTTAAAAACATG
1 TATAATATATAGTTTTTAAAACATTTTTGAAAAC-TA
*
1322456 TATAATATATAGTTTTTAAAAGCATTTTGGAAA
1 TATAATATATAGTTTTTAAAA-CATTTTTGAAA
1322489 TTTATATATT
Statistics
Matches: 229, Mismatches: 45, Indels: 43
0.72 0.14 0.14
Matches are distributed among these distances:
35 38 0.17
36 46 0.20
37 61 0.27
38 31 0.14
39 23 0.10
40 6 0.03
41 15 0.07
42 7 0.03
44 2 0.01
ACGTcount: A:0.45, C:0.04, G:0.07, T:0.45
Consensus pattern (36 bp):
TATAATATATAGTTTTTAAAACATTTTTGAAAACTA
Found at i:1322541 original size:3 final size:3
Alignment explanation
Indices: 1322533--1322574 Score: 52
Period size: 3 Copynumber: 14.3 Consensus size: 3
1322523 ATATATATAG
*
1322533 TAT TAT TAT TAT TAT TAT T-T TAT T-T TATT TCT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TA-T TAT TAT TAT TAT T
1322575 TATGCTTTTT
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
2 4 0.12
3 28 0.82
4 2 0.06
ACGTcount: A:0.26, C:0.02, G:0.00, T:0.71
Consensus pattern (3 bp):
TAT
Found at i:1323160 original size:16 final size:16
Alignment explanation
Indices: 1323139--1323171 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1323129 GCAAATACAG
1323139 AAACAAA-ACCCAAAAA
1 AAACAAATA-CCAAAAA
1323155 AAACAAATACCAAAAA
1 AAACAAATACCAAAAA
1323171 A
1 A
1323172 TACCGAAGGT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 15 0.94
17 1 0.06
ACGTcount: A:0.76, C:0.21, G:0.00, T:0.03
Consensus pattern (16 bp):
AAACAAATACCAAAAA
Found at i:1325037 original size:17 final size:17
Alignment explanation
Indices: 1325015--1325051 Score: 65
Period size: 17 Copynumber: 2.2 Consensus size: 17
1325005 TTTCACCCTT
1325015 ACTAATACATGGGCTCC
1 ACTAATACATGGGCTCC
*
1325032 ACTAATGCATGGGCTCC
1 ACTAATACATGGGCTCC
1325049 ACT
1 ACT
1325052 CAGTTATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (17 bp):
ACTAATACATGGGCTCC
Found at i:1326275 original size:14 final size:14
Alignment explanation
Indices: 1326209--1326290 Score: 57
Period size: 13 Copynumber: 5.9 Consensus size: 14
1326199 ATTAATATAA
*
1326209 TAATTAATATTATTT
1 TAATT-ATATAATTT
1326224 TAA-TA-A-AATTT
1 TAATTATATAATTT
*
1326235 TAATTATTAAATTATTT
1 TAATTA-T--ATAATTT
1326252 TAATTA-ATAATTT
1 TAATTATATAATTT
*
1326265 TAATTATATAATAT
1 TAATTATATAATTT
1326279 T-ATTATAATAAT
1 TAATTAT-ATAAT
1326291 ATACTCATGT
Statistics
Matches: 55, Mismatches: 4, Indels: 17
0.72 0.05 0.22
Matches are distributed among these distances:
11 7 0.13
12 3 0.05
13 18 0.33
14 13 0.24
15 3 0.05
16 1 0.02
17 10 0.18
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (14 bp):
TAATTATATAATTT
Found at i:1326291 original size:14 final size:15
Alignment explanation
Indices: 1326195--1326292 Score: 53
Period size: 14 Copynumber: 6.4 Consensus size: 15
1326185 TTTATGTATT
1326195 TAATATTAATATAATAA
1 TAATATTAAT-T-ATAA
*
1326212 TTAATATT-ATTTTAA
1 -TAATATTAATTATAA
*
1326227 TAAAATTTTAATTATTAAA
1 T--AATATTAATTA-T-AA
* *
1326246 TTATTTTAA-T-TAA
1 TAATATTAATTATAA
*
1326259 TAATTTTAATTAT-A
1 TAATATTAATTATAA
1326273 TAATATT-ATTATAA
1 TAATATTAATTATAA
1326287 TAATAT
1 TAATAT
1326293 ACTCATGTAT
Statistics
Matches: 66, Mismatches: 6, Indels: 20
0.72 0.07 0.22
Matches are distributed among these distances:
13 15 0.23
14 17 0.26
15 4 0.06
16 7 0.11
17 12 0.18
18 8 0.12
19 3 0.05
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TAATATTAATTATAA
Found at i:1331551 original size:27 final size:27
Alignment explanation
Indices: 1331521--1331574 Score: 108
Period size: 27 Copynumber: 2.0 Consensus size: 27
1331511 TACATTTTCT
1331521 ATTCTAGTGTATGTAACAATTTCAACA
1 ATTCTAGTGTATGTAACAATTTCAACA
1331548 ATTCTAGTGTATGTAACAATTTCAACA
1 ATTCTAGTGTATGTAACAATTTCAACA
1331575 TGCTTTCATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.37, C:0.15, G:0.11, T:0.37
Consensus pattern (27 bp):
ATTCTAGTGTATGTAACAATTTCAACA
Found at i:1334755 original size:15 final size:14
Alignment explanation
Indices: 1334718--1334756 Score: 51
Period size: 15 Copynumber: 2.7 Consensus size: 14
1334708 AATGGGAAGT
*
1334718 AATCCCTGCAAATA
1 AATCCCTGCAAAAA
1334732 AATCCCTGCGAAAAA
1 AATCCCTGC-AAAAA
*
1334747 AATCTCTGCA
1 AATCCCTGCA
1334757 TATAGACAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
14 10 0.45
15 12 0.55
ACGTcount: A:0.41, C:0.28, G:0.10, T:0.21
Consensus pattern (14 bp):
AATCCCTGCAAAAA
Found at i:1339633 original size:23 final size:21
Alignment explanation
Indices: 1339582--1339645 Score: 67
Period size: 21 Copynumber: 3.0 Consensus size: 21
1339572 CCCTGTGGGG
1339582 GGGGGGGAATCGGTTCCCCTTCA
1 GGGGGGGAATCGGTT-CCC-TCA
**
1339605 AAGGGGGAATCGGTTCCCTCA
1 GGGGGGGAATCGGTTCCCTCA
*
1339626 TGGGGGGG-ATCGATTCCCTC
1 -GGGGGGGAATCGGTTCCCTC
1339646 TGCACCAAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 14 0.40
22 8 0.23
23 13 0.37
ACGTcount: A:0.16, C:0.25, G:0.38, T:0.22
Consensus pattern (21 bp):
GGGGGGGAATCGGTTCCCTCA
Found at i:1350756 original size:15 final size:15
Alignment explanation
Indices: 1350736--1350770 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
1350726 CTTTATGAAA
1350736 ATGTTGTGGCAAAAG
1 ATGTTGTGGCAAAAG
1350751 ATGTTGTGGCAAAAG
1 ATGTTGTGGCAAAAG
1350766 ATGTT
1 ATGTT
1350771 TGTTATACCA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.31, C:0.06, G:0.31, T:0.31
Consensus pattern (15 bp):
ATGTTGTGGCAAAAG
Found at i:1358264 original size:55 final size:59
Alignment explanation
Indices: 1358203--1358348 Score: 149
Period size: 60 Copynumber: 2.5 Consensus size: 59
1358193 GAAATATTAA
* * *
1358203 AAAAGTTTGGGGACCAATTTAGGATGA-AG-AT-CTTT-GGGATGAAAATGAAATGTTT
1 AAAAGTTTGAGGACCAATTTAGAATGATAGTATACTTTAAGGATGAAAATGAAATGTTT
* ** * *
1358258 AGAAGTTTGAGGATTAATTTAGAATGATAGTTATAGTTTAAGGATGAAATTGAAATGTTT
1 AAAAGTTTGAGGACCAATTTAGAATGATAG-TATACTTTAAGGATGAAAATGAAATGTTT
* *
1358318 AAAAGTTT-AGAGACTAATTTAAAATGATAGT
1 AAAAGTTTGAG-GACCAATTTAGAATGATAGT
1358349 CATAAATTGG
Statistics
Matches: 74, Mismatches: 11, Indels: 8
0.80 0.12 0.09
Matches are distributed among these distances:
55 22 0.30
56 2 0.03
58 2 0.03
59 6 0.08
60 42 0.57
ACGTcount: A:0.40, C:0.03, G:0.23, T:0.34
Consensus pattern (59 bp):
AAAAGTTTGAGGACCAATTTAGAATGATAGTATACTTTAAGGATGAAAATGAAATGTTT
Found at i:1359559 original size:228 final size:229
Alignment explanation
Indices: 1359082--1359571 Score: 808
Period size: 229 Copynumber: 2.1 Consensus size: 229
1359072 GTTATATTGT
* * ** *
1359082 AAAGTATCTATCTTTTTTATAAAAGTGTCCATACTTATTTCATTGTGAAAATATATTTATTATTA
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACCGTGAAAACATATTTATTATTA
1359147 TCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAA
66 TCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAA
* *
1359212 TAATTTTGTGTGTAAATGAAATTATTAAATTAATATTATAGGTGAAAAATATGAAACACTATTAA
131 TAATTTTGTGTGTAAATGAAATTACTAAATTAATATTATAGGTGAAAAACATGAAACACTATTAA
* *
1359277 AAAAAATTGAAATATAAATTACATAACTTTATAA
196 AAAAAATTGAAACATAAATTACATAACTTTAAAA
1359311 AAA-TATATATCATTTTTATAAAAGTGTCCATACTTATTTCACCGTAGAAAACATATTTATTATT
1 AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACCGT-GAAAACATATTTATTATT
* *
1359375 ATTTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATC-AAATAATCAA
65 ATCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAA
* * *
1359439 ATAATTTTTTTGTGTAAATGAAATT-CTAAA-TAATATTGTAGGTGGAAAACATGAAACACTATT
130 ATAA-TTTTGTGTGTAAATGAAATTACTAAATTAATATTATAGGTGAAAAACATGAAACACTATT
1359502 AAAAAAAATTGAAACATAAATTACATAACTTTAAAA
194 AAAAAAAATTGAAACATAAATTACATAACTTTAAAA
1359538 AAAGTATATATCATTTTTATAAAAGTGTCCATAC
1 AAAGTATATATCATTTTTATAAAAGTGTCCATAC
1359572 GTATAAAAGT
Statistics
Matches: 244, Mismatches: 14, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
227 67 0.27
228 85 0.35
229 92 0.38
ACGTcount: A:0.45, C:0.08, G:0.08, T:0.40
Consensus pattern (229 bp):
AAAGTATATATCATTTTTATAAAAGTGTCCATACTTATTTCACCGTGAAAACATATTTATTATTA
TCTTTGGTTAATATTGTTAAATTTAAATTCTAAATAATATTTTATAAAATATCAAAACAATCAAA
TAATTTTGTGTGTAAATGAAATTACTAAATTAATATTATAGGTGAAAAACATGAAACACTATTAA
AAAAAATTGAAACATAAATTACATAACTTTAAAA
Found at i:1361887 original size:21 final size:21
Alignment explanation
Indices: 1361863--1361906 Score: 70
Period size: 21 Copynumber: 2.1 Consensus size: 21
1361853 AAGACAATCA
1361863 AGAGTCGAAGAGAAACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
* *
1361884 AGAGTCGAAGATACACTTGAG
1 AGAGTCGAAGAGAAACTTGAG
1361905 AG
1 AG
1361907 GCATAAGGGG
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.41, C:0.11, G:0.32, T:0.16
Consensus pattern (21 bp):
AGAGTCGAAGAGAAACTTGAG
Found at i:1361982 original size:33 final size:33
Alignment explanation
Indices: 1361940--1362005 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
1361930 AAATAGATGG
*
1361940 AGTGGTGAAAGAAGTAGAGGTGTTGAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
* *
1361973 AGTGGTGAAAGAAGTTGGGGTGTTAAGGGGTGA
1 AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
1362006 TATTAAGATG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.29, C:0.00, G:0.48, T:0.23
Consensus pattern (33 bp):
AGTGGTGAAAGAAGTAGAGGTGTTAAGGGGTGA
Found at i:1363825 original size:19 final size:19
Alignment explanation
Indices: 1363801--1363849 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
1363791 AATATAGGGT
1363801 TAATTTTGTATAAGATTTA
1 TAATTTTGTATAAGATTTA
*
1363820 TAATTTTGTATACGATTTA
1 TAATTTTGTATAAGATTTA
*
1363839 TATTTTTGTAT
1 TAATTTTGTAT
1363850 GTGAATATAA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.31, C:0.02, G:0.10, T:0.57
Consensus pattern (19 bp):
TAATTTTGTATAAGATTTA
Found at i:1364620 original size:198 final size:198
Alignment explanation
Indices: 1363988--1365113 Score: 2027
Period size: 198 Copynumber: 5.7 Consensus size: 198
1363978 AACCATAAAT
* *
1363988 TGTCGATCCCAAAAACATCGAAAACCAAAAGTATAATGTAATATGTAATTTTTCAATTTAACCGG
1 TGTCGATCCCAAAAACATCG-AACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGG
* * *
1364053 TAGAAGTATACCAGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACGTTTTAGTTTGTGT
65 TACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGT
* *
1364118 CGATATTTTTGGTCCAAAATGAATGGAAAACAGGGTGCAACTATAAAGTGTCGATCCATATATAA
130 CGATATTTTTGGTCCAGAATGAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAA
1364183 AAAG
195 AAAG
*
1364187 TGTCGATCCCAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTTTTAATCTAACCGGT
1 TGTCGATCCCAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGT
* *
1364252 GCAAGTATACTGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTATTTTAGTTTGTGT
66 ACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACT-TTTTAGTTTGTGT
*
1364317 CGATATTTTTGTTCCAGAATGAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAA
130 CGATATTTTTGGTCCAGAATGAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAA
1364382 AAAG
195 AAAG
*
1364386 TGTCGATCTCAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGT
1 TGTCGATCCCAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGT
1364451 ACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTC
66 ACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTC
* * *
1364516 GATAGTTTTGGTCCAGAATGAATGGAAAACATGATGCAACCATAAAGTGTCGATCCATATATAAA
131 GATATTTTTGGTCCAGAATGAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAA
1364581 AAG
196 AAG
*
1364584 TGTCAATCCCAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGT
1 TGTCGATCCCAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGT
*
1364649 ACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTAGTTGGTGTC
66 ACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTC
*
1364714 GATATTTTTGGTCCAGAATGAATGGAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAA
131 GATATTTTTGGTCCAGAATGAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAA
1364779 AAG
196 AAG
1364782 TGTCGATCCCAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGT
1 TGTCGATCCCAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGT
*
1364847 ACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTAGTTGGTGTC
66 ACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTC
* *
1364912 GATATTTTTGGTCCAGAATGAATGAAAAACAGGGTGCACCCATAAAGTGTCGATCCATATATAAA
131 GATATTTTTGGTCCAGAATGAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAA
1364977 AAG
196 AAG
*
1364980 TGTCGATCCCAAAAACATCGAACCCAAAAGTATAATGTAATATATAATTTTTCAATCTAACCGGT
1 TGTCGATCCCAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGT
*
1365045 ACAAGTATACCAGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTC
66 ACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTC
1365110 GATA
131 GATA
1365114 CTAATTTAAA
Statistics
Matches: 895, Mismatches: 31, Indels: 3
0.96 0.03 0.00
Matches are distributed among these distances:
198 684 0.76
199 211 0.24
ACGTcount: A:0.36, C:0.15, G:0.18, T:0.31
Consensus pattern (198 bp):
TGTCGATCCCAAAAACATCGAACCCAAAAGTATAATGTAATATGTAATTTTTCAATCTAACCGGT
ACAAGTATACCGGTTTTATGAGAGAATATGTCTAAATAATGTGTCGACACTTTTTAGTTTGTGTC
GATATTTTTGGTCCAGAATGAATGGAAAACAGGGTGCAACCATAAAGTGTCGATCCATATATAAA
AAG
Found at i:1366603 original size:6 final size:6
Alignment explanation
Indices: 1366579--1366664 Score: 73
Period size: 6 Copynumber: 14.3 Consensus size: 6
1366569 AGCGGTCGTA
* * * * * *
1366579 GAAGAT GAAGCT GACGAT GAAGAT GACGAT GATGAT GACGAT GAAGCT
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT
* * * * *
1366627 GACGAT GAAGAT GATGAC GATGAT GATGAT GAAGAT GA
1 GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GAAGAT GA
1366665 TGATCCAAAC
Statistics
Matches: 64, Mismatches: 16, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
6 64 1.00
ACGTcount: A:0.38, C:0.08, G:0.34, T:0.20
Consensus pattern (6 bp):
GAAGAT
Found at i:1366629 original size:36 final size:36
Alignment explanation
Indices: 1366582--1366660 Score: 131
Period size: 36 Copynumber: 2.2 Consensus size: 36
1366572 GGTCGTAGAA
*
1366582 GATGAAGCTGACGATGAAGATGACGATGATGATGAC
1 GATGAAGCTGACGATGAAGATGACGACGATGATGAC
* *
1366618 GATGAAGCTGACGATGAAGATGATGACGATGATGAT
1 GATGAAGCTGACGATGAAGATGACGACGATGATGAC
1366654 GATGAAG
1 GATGAAG
1366661 ATGATGATCC
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
36 40 1.00
ACGTcount: A:0.37, C:0.09, G:0.34, T:0.20
Consensus pattern (36 bp):
GATGAAGCTGACGATGAAGATGACGACGATGATGAC
Found at i:1366668 original size:12 final size:12
Alignment explanation
Indices: 1366582--1366664 Score: 103
Period size: 12 Copynumber: 6.9 Consensus size: 12
1366572 GGTCGTAGAA
*
1366582 GATGAAGCTGAC
1 GATGAAGATGAC
1366594 GATGAAGATGAC
1 GATGAAGATGAC
*
1366606 GATGATGATGAC
1 GATGAAGATGAC
*
1366618 GATGAAGCTGAC
1 GATGAAGATGAC
*
1366630 GATGAAGATGAT
1 GATGAAGATGAC
* * *
1366642 GACGATGATGAT
1 GATGAAGATGAC
1366654 GATGAAGATGA
1 GATGAAGATGA
1366665 TGATCCAAAC
Statistics
Matches: 61, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 61 1.00
ACGTcount: A:0.37, C:0.08, G:0.34, T:0.20
Consensus pattern (12 bp):
GATGAAGATGAC
Found at i:1367894 original size:16 final size:16
Alignment explanation
Indices: 1367862--1367895 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
1367852 TATCCACAAC
* *
1367862 AAAGTGTCGATTTAAA
1 AAAGTGTCGACTGAAA
1367878 AAAGTGTCGACTGAAA
1 AAAGTGTCGACTGAAA
1367894 AA
1 AA
1367896 TGTAATAGAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.47, C:0.09, G:0.21, T:0.24
Consensus pattern (16 bp):
AAAGTGTCGACTGAAA
Found at i:1368287 original size:23 final size:23
Alignment explanation
Indices: 1368256--1368328 Score: 101
Period size: 23 Copynumber: 3.2 Consensus size: 23
1368246 ATAGGTAAAA
*
1368256 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1368279 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1368302 ATATAATGTAATAGGTAGTGGTT
1 ATATAATGTAATAGGTAGCGCTT
1368325 ATAT
1 ATAT
1368329 TGTAAAGTAT
Statistics
Matches: 44, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.34, C:0.04, G:0.22, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1368984 original size:183 final size:182
Alignment explanation
Indices: 1368709--1369201 Score: 869
Period size: 183 Copynumber: 2.7 Consensus size: 182
1368699 GCAATGCTAT
1368709 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
* *
1368774 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTGTCAAAAAGTGTCGATA
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATT-TAAAAAAGTGTCGACA
* *
1368839 TTTACACATCGGAACCCATAATTATAATGTAATAGATAATTTTGTAATATAAC
130 TTTACACATCGAAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
* *
1368892 CGGTATAAATATACCGATTTTATGCGCGAATAGGTCTACAGCCTATATCGACACTTTTTAATATT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
1368957 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACGATTTAAAAAAGTGTCGACA
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATAC-ATTTAAAAAAGTGTCGACA
*
1369022 TTTACACATCGAAACCCAGATTTATAATGTAATAGATAATTTTGTAATATAAC
130 TTTACACATCGAAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
* * *
1369075 CGGTATAAATATACCGGTTTTATGAGCGAATAGGTCTACAACCTATATCAACACTTTCTAATATT
1 CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
1369140 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACCATTTAAAAAAGTGTCG
66 GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATA-CATTTAAAAAAGTGTCG
1369202 GTAATTTTAA
Statistics
Matches: 296, Mismatches: 12, Indels: 4
0.95 0.04 0.01
Matches are distributed among these distances:
183 292 0.99
184 4 0.01
ACGTcount: A:0.34, C:0.15, G:0.17, T:0.33
Consensus pattern (182 bp):
CGGTATAAATATACCGGTTTTATGCGCGAATAGGTCTACAACCTATATCGACACTTTTTAATATT
GTGTCGGTACTTTATGTCCAGATTGGAAGAAAAATGTGTCGATACATTTAAAAAAGTGTCGACAT
TTACACATCGAAACCCAGAATTATAATGTAATAGATAATTTTGTAATATAAC
Found at i:1371677 original size:25 final size:25
Alignment explanation
Indices: 1371643--1371698 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
1371633 TTATCATTAA
1371643 ATTTAGGTATGTACAATAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
****
1371668 ATTTAGGTATGTTTGTTAACTACAT
1 ATTTAGGTATGTACAATAACTACAT
1371693 ATTTAG
1 ATTTAG
1371699 ATATACATCT
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.34, C:0.09, G:0.14, T:0.43
Consensus pattern (25 bp):
ATTTAGGTATGTACAATAACTACAT
Found at i:1372065 original size:23 final size:23
Alignment explanation
Indices: 1372039--1372096 Score: 98
Period size: 23 Copynumber: 2.5 Consensus size: 23
1372029 GGTAAACATG
1372039 ATGTAATAGGTAACGCTTATATA
1 ATGTAATAGGTAACGCTTATATA
* *
1372062 ATGTAATAGGTATCGTTTATATA
1 ATGTAATAGGTAACGCTTATATA
1372085 ATGTAATAGGTA
1 ATGTAATAGGTA
1372097 GTGGTTATAT
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.38, C:0.05, G:0.19, T:0.38
Consensus pattern (23 bp):
ATGTAATAGGTAACGCTTATATA
Found at i:1372104 original size:23 final size:22
Alignment explanation
Indices: 1372039--1372106 Score: 82
Period size: 23 Copynumber: 3.0 Consensus size: 22
1372029 GGTAAACATG
*
1372039 ATGTAATAGGTAACGCTTATATA
1 ATGTAATAGGT-ATGCTTATATA
*
1372062 ATGTAATAGGTATCGTTTATATA
1 ATGTAATAGGTAT-GCTTATATA
*
1372085 ATGTAATAGGTAGTGGTTATAT
1 ATGTAATAGGTA-TGCTTATAT
1372107 TGTAAGTATC
Statistics
Matches: 40, Mismatches: 3, Indels: 4
0.85 0.06 0.09
Matches are distributed among these distances:
22 1 0.03
23 38 0.95
24 1 0.03
ACGTcount: A:0.35, C:0.04, G:0.21, T:0.40
Consensus pattern (22 bp):
ATGTAATAGGTATGCTTATATA
Found at i:1372398 original size:24 final size:24
Alignment explanation
Indices: 1372371--1372418 Score: 78
Period size: 24 Copynumber: 2.0 Consensus size: 24
1372361 CAATCAATTA
* *
1372371 AACATTGTTGTGGGTACATTATTG
1 AACATTGTTATGGGTAAATTATTG
1372395 AACATTGTTATGGGTAAATTATTG
1 AACATTGTTATGGGTAAATTATTG
1372419 GAAAAATAAT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.29, C:0.06, G:0.23, T:0.42
Consensus pattern (24 bp):
AACATTGTTATGGGTAAATTATTG
Found at i:1373067 original size:39 final size:39
Alignment explanation
Indices: 1373010--1373096 Score: 138
Period size: 39 Copynumber: 2.2 Consensus size: 39
1373000 TCCGATACTC
**
1373010 ATCAAAATCCAAAGCTCATATGGTGCCAAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATAATGCCAAGCAAAAGGAA
* *
1373049 ATCAAAATCCAAATCTCATATAATGCCTAGCAAAAGGAA
1 ATCAAAATCCAAAGCTCATATAATGCCAAGCAAAAGGAA
1373088 ATCAAAATC
1 ATCAAAATC
1373097 TACAACTTGA
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.48, C:0.21, G:0.13, T:0.18
Consensus pattern (39 bp):
ATCAAAATCCAAAGCTCATATAATGCCAAGCAAAAGGAA
Found at i:1373555 original size:23 final size:23
Alignment explanation
Indices: 1373509--1373579 Score: 90
Period size: 23 Copynumber: 3.1 Consensus size: 23
1373499 ATAGGTAAAA
* * *
1373509 ATATGATGT-ATAGGTAGCGCTT
1 ATATAATGTAATAGGTATCGTTT
1373531 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTATCGTTT
*
1373554 ATATAATGTAATAGGTAGTGGTTT
1 ATATAATGTAATAGGTA-TCGTTT
1373578 AT
1 AT
1373580 TGTAAAGTAT
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
22 8 0.19
23 28 0.65
24 7 0.16
ACGTcount: A:0.32, C:0.04, G:0.23, T:0.41
Consensus pattern (23 bp):
ATATAATGTAATAGGTATCGTTT
Found at i:1373963 original size:23 final size:23
Alignment explanation
Indices: 1373932--1373995 Score: 101
Period size: 23 Copynumber: 2.8 Consensus size: 23
1373922 ATAGGTAAAA
*
1373932 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1373955 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
1373978 ATATAATGTAATAGGTAG
1 ATATAATGTAATAGGTAG
1373996 TGGTATATTG
Statistics
Matches: 37, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.36, C:0.05, G:0.22, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1374387 original size:23 final size:23
Alignment explanation
Indices: 1374356--1374415 Score: 93
Period size: 23 Copynumber: 2.6 Consensus size: 23
1374346 ATAGGTAAAA
*
1374356 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
* *
1374379 ATATAATGTAATAGGTATCGTTT
1 ATATAATGTAATAGGTAGCGCTT
1374402 ATATAATGTAATAG
1 ATATAATGTAATAG
1374416 ATAGTGGTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
23 34 1.00
ACGTcount: A:0.37, C:0.05, G:0.20, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1374426 original size:23 final size:23
Alignment explanation
Indices: 1374356--1374428 Score: 85
Period size: 23 Copynumber: 3.2 Consensus size: 23
1374346 ATAGGTAAAA
* *
1374356 ATATGATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGTGCTT
*
1374379 ATATAATGTAATAGGTA-TCGTTT
1 ATATAATGTAATAGGTAGT-GCTT
* *
1374402 ATATAATGTAATAGATAGTGGTT
1 ATATAATGTAATAGGTAGTGCTT
1374425 ATAT
1 ATAT
1374429 TGTAAGTATC
Statistics
Matches: 43, Mismatches: 5, Indels: 4
0.83 0.10 0.08
Matches are distributed among these distances:
23 42 0.98
24 1 0.02
ACGTcount: A:0.36, C:0.04, G:0.21, T:0.40
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGTGCTT
Found at i:1374795 original size:425 final size:429
Alignment explanation
Indices: 1373322--1375204 Score: 3448
Period size: 424 Copynumber: 4.4 Consensus size: 429
1373312 TAAATTTAAA
*
1373322 TCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAA
1 TCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAA
*
1373387 ATTAATATTGTAGGTGGAAAACATGAAACACTGTT--AAAAAATTGAAACATAAATTACATAACT
66 ATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACT
1373450 TT-AAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATA-AATAGGTAAAAATAT
131 TTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATAT
1373513 GATGT-ATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTT
196 GATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTT
1373577 -TATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATAC-TTTTTCACTGTGGAAAACATTAA
261 ATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAA
*
1373640 TTTAAGGTTATCCTTTGAGTGAGTTTTAAGATATTAATTTAGT-A--ATAGGCGTCTAATGATTT
326 TTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTT
1373702 ATTTTTTACGTTACGATATATTATTATTAAATTAAAAAT
391 ATTTTTTACGTTACGATATATTATTATTAAATTAAAAAT
1373741 TCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAA
1 TCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAA
1373806 ATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACT
66 ATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACT
*
1373871 TTAAAAGAAGTATCGATCCTTTTTATAAAAGGTATGGACACTTTCAATATAATAGGTAAAAATAT
131 TTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATAT
1373936 GATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGG-T
196 GATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTT
*
1374000 ATATTGTAAAGTGTCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAA
261 ATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAA
1374065 TTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTT
326 TTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTT
1374130 ATTTTTTACGTTACG--ATA-TA-TATTAAATTAAAAAT
391 ATTTTTTACGTTACGATATATTATTATTAAATTAAAAAT
*
1374165 TCTAAATAATATTTTATAAAATATCAAAATAATCAAATAATTTTTTGTGCAAATGAAATTATTAA
1 TCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAA
1374230 ATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACT
66 ATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACT
1374295 TTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATAT
131 TTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATAT
*
1374360 GATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGATAGTGGTT
196 GATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTT
*
1374425 ATATTGT-AAGTATCTATCCTTTTTAT-AAAGTGTTCATACTTTTTTCACTGTGGAAAACATTAA
261 ATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAA
1374488 TTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTT
326 TTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTT
1374553 A-TTTTTACGTTACGATATATATTATTATTAAATTAAAAAT
391 ATTTTTTACGTTACG--ATATATTATTATTAAATTAAAAAT
1374593 TCTAAATAATA-TTT-TAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAA
1 TCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAA
*
1374656 ATTAATATTGTAGGGGGAAAACATGAAACACTATT-AAAAAAATTGAAACATAAATTACATAACT
66 ATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACT
1374720 TTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATAT
131 TTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATAT
* * *
1374785 AATGTAATAGGTAGCGCTTATATAATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTT
196 GATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTT
* *
1374850 ATATTGTAAAGTATTTATCCTTTTTATAAAAGTGTCCATACATTTTTCACTGTGGAAAACATTAA
261 ATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAA
1374915 TTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTT
326 TTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTT
1374980 ATTTTTTACGTTACGATATATATTATTATTAAATTAAAAAT
391 ATTTTTTACGTTACG--ATATATTATTATTAAATTAAAAAT
*
1375021 TCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAA
1 TCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAA
1375086 ATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACT
66 ATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACT
1375151 TTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATA
131 TTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATA
1375205 TAATGTAATA
Statistics
Matches: 1420, Mismatches: 21, Indels: 34
0.96 0.01 0.02
Matches are distributed among these distances:
419 98 0.07
421 30 0.02
422 58 0.04
423 123 0.09
424 384 0.27
425 237 0.17
426 107 0.08
427 106 0.07
428 108 0.08
429 3 0.00
430 83 0.06
431 83 0.06
ACGTcount: A:0.41, C:0.08, G:0.13, T:0.38
Consensus pattern (429 bp):
TCTAAATAATATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAA
ATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACT
TTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATAT
GATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTT
ATATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTTCACTGTGGAAAACATTAA
TTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTT
ATTTTTTACGTTACGATATATTATTATTAAATTAAAAAT
Found at i:1374811 original size:23 final size:23
Alignment explanation
Indices: 1374781--1374853 Score: 128
Period size: 23 Copynumber: 3.2 Consensus size: 23
1374771 ATAGGTAAAA
1374781 ATATAATGTAATAGGTAGCGCTT
1 ATATAATGTAATAGGTAGCGCTT
*
1374804 ATATAATGTAATAGGTAGCGTTT
1 ATATAATGTAATAGGTAGCGCTT
*
1374827 ATATAATGTAATAGGTAGTGCTT
1 ATATAATGTAATAGGTAGCGCTT
1374850 ATAT
1 ATAT
1374854 TGTAAAGTAT
Statistics
Matches: 47, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 47 1.00
ACGTcount: A:0.36, C:0.05, G:0.21, T:0.38
Consensus pattern (23 bp):
ATATAATGTAATAGGTAGCGCTT
Found at i:1374905 original size:850 final size:850
Alignment explanation
Indices: 1373322--1375204 Score: 3441
Period size: 850 Copynumber: 2.2 Consensus size: 850
1373312 TAAATTTAAA
1373322 TCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAA
1 TCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAA
*
1373387 ATTAATATTGTAGGTGGAAAACATGAAACACTGTT--AAAAAATTGAAACATAAATTACATAACT
66 ATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACT
1373450 TT-AAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATA-AATAGGTAAAAATAT
131 TTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATAT
*
1373513 GATGTATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGGTAGTGGTTT
196 GATGTATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGATAGTGGTTT
1373578 ATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTCACTGTGGAAAACATTAATTT
261 ATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTCACTGTGGAAAACATTAATTT
1373643 AAGGTTATCCTTTGAGTGAGTTTTAAGATATTAATTTAGTAATAGGCGTCTAATGATTTATTTTT
326 AAGGTTATCCTTTGAGTGAGTTTTAAGATATTAATTTAGTAATAGGCGTCTAATGATTTATTTTT
1373708 TACGTTACGATATATTATTATTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAA
391 TACGTTACGATATATTATTATTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAA
*
1373773 TCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGTGGAAAACATGAAACACT
456 TCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGGGGAAAACATGAAACACT
*
1373838 ATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAGG
521 ATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAG
*
1373903 TATGGACACTTTCAATATAATAGGTAAAAATATGATGTAATAGGTAGCGCTTATATAATGTAATA
586 TATGGACACTTTCAATATAATAGGTAAAAATATAATGTAATAGGTAGCGCTTATATAATGTAATA
* *
1373968 GGTATCGTTTATATAATGTAATAGGTAGTGGTATATTGTAAAGTGTCTATCCTTTTTATAAAAGT
651 GGTAGCGTTTATATAATGTAATAGGTAGTGGTATATTGTAAAGTATCTATCCTTTTTATAAAAGT
*
1374033 GTCCATACTTTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATA
716 GTCCATACATTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATA
1374098 TTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACG-ATA-TA-TATTAAATTA
781 TTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGAATATTATTATTAAATTA
1374160 AAAAT
846 AAAAT
* *
1374165 TCTAAATAATATTTTATAAAATATCAAAATAATCAAATAATTTTTTGTGCAAATGAAATTATTAA
1 TCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAA
1374230 ATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACT
66 ATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACT
1374295 TTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATAT
131 TTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATAT
1374360 GATGTAATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGATAGTGGTT
196 GATGT-ATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGATAGTGGTT
*
1374425 ATATTGT-AAGTATCTATCCTTTTTAT-AAAGTGTTCATACTTTTTTCACTGTGGAAAACATTAA
260 -TATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATAC-TTTTTCACTGTGGAAAACATTAA
*
1374488 TTTAAGGTTATCTTTTGAGTGAGTTTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTT
323 TTTAAGGTTATCCTTTGAGTGAGTTTTAAGATATTAATTTAGT-A--ATAGGCGTCTAATGATTT
1374553 A-TTTTTACGTTACGATATATATTATTATTAAATTAAAAATTCTAAATAATA-TTT-TAAAATAT
385 ATTTTTTACGTTACG--ATATATTATTATTAAATTAAAAATTCTAAATAATATTTTATAAAATAT
1374615 CAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGGGGAAAACAT
448 CAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGGGGAAAACAT
1374680 GAAACACTATT-AAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTT
513 GAAACACTATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTT
1374744 ATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATAATGTAATAGGTAGCGCTTATATA
578 ATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATATAATGTAATAGGTAGCGCTTATATA
* *
1374809 ATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTGCTTATATTGTAAAGTATTTATCCTTTT
643 ATGTAATAGGTAGCGTTTATATAATGTAATAGGTAGTG-GTATATTGTAAAGTATCTATCCTTTT
1374874 TATAAAAGTGTCCATACATTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGT
707 TATAAAAGTGTCCATACATTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGT
1374939 TTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGATATATATT
772 TTTAAGATATTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACG--A-ATATT
1375004 ATTATTAAATTAAAAAT
834 ATTATTAAATTAAAAAT
1375021 TCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAA
1 TCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAA
1375086 ATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACT
66 ATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACT
1375151 TTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATA
131 TTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATA
1375205 TAATGTAATA
Statistics
Matches: 1005, Mismatches: 16, Indels: 25
0.96 0.02 0.02
Matches are distributed among these distances:
843 97 0.10
845 30 0.03
846 46 0.05
847 32 0.03
848 142 0.14
849 160 0.16
850 239 0.24
851 22 0.02
852 35 0.03
854 3 0.00
855 2 0.00
856 197 0.20
ACGTcount: A:0.41, C:0.08, G:0.13, T:0.38
Consensus pattern (850 bp):
TCTAAATATTATTTTATAAAATATCAAAACAATCAAATAATTTTTTGTGCAAATGAAATTATTAA
ATTAATATTGTAGGTGGAAAACATGAAACACTATTAAAAAAAATTGAAACATAAATTACATAACT
TTAAAAGAAGTATCGATCCTTTTTATAAAAAGTATGGACACTTTCAATATAATAGGTAAAAATAT
GATGTATAGGTAGCGCTTATATAATGTAATAGGTATCGTTTATATAATGTAATAGATAGTGGTTT
ATTGTAAAGTATCTATCCTTTTTATAAAAGTGTCCATACTTTTTCACTGTGGAAAACATTAATTT
AAGGTTATCCTTTGAGTGAGTTTTAAGATATTAATTTAGTAATAGGCGTCTAATGATTTATTTTT
TACGTTACGATATATTATTATTAAATTAAAAATTCTAAATAATATTTTATAAAATATCAAAACAA
TCAAATAATTTTTTGTGCAAATGAAATTATTAAATTAATATTGTAGGGGGAAAACATGAAACACT
ATTAAAAAAAATTGAAACATAAATTACATAACTTTAAAAGAAGTATCGATCCTTTTTATAAAAAG
TATGGACACTTTCAATATAATAGGTAAAAATATAATGTAATAGGTAGCGCTTATATAATGTAATA
GGTAGCGTTTATATAATGTAATAGGTAGTGGTATATTGTAAAGTATCTATCCTTTTTATAAAAGT
GTCCATACATTTTTCACTGTGGAAAACATTAATTTAAGGTTATCTTTTGAGTGAGTTTTAAGATA
TTAATTTAGTAATTATAGGCGTCTAATGATTTATTTTTTACGTTACGAATATTATTATTAAATTA
AAAAT
Found at i:1375959 original size:25 final size:26
Alignment explanation
Indices: 1375924--1375977 Score: 83
Period size: 26 Copynumber: 2.1 Consensus size: 26
1375914 TCTTAATTTA
1375924 TTATGAG-AAAAAAATAATCTCTAAC
1 TTATGAGAAAAAAAATAATCTCTAAC
* *
1375949 TTATGATAAAAAAAATAATCTTTAAC
1 TTATGAGAAAAAAAATAATCTCTAAC
1375975 TTA
1 TTA
1375978 GAAAAACACT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 6 0.23
26 20 0.77
ACGTcount: A:0.52, C:0.09, G:0.06, T:0.33
Consensus pattern (26 bp):
TTATGAGAAAAAAAATAATCTCTAAC
Found at i:1379510 original size:19 final size:19
Alignment explanation
Indices: 1379486--1379525 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
1379476 TAAGTATGTA
1379486 TGGTGATAAAATTATAGTG
1 TGGTGATAAAATTATAGTG
1379505 TGGTGATAAAATTATAGTG
1 TGGTGATAAAATTATAGTG
1379524 TG
1 TG
1379526 CAAATAATGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.35, C:0.00, G:0.28, T:0.38
Consensus pattern (19 bp):
TGGTGATAAAATTATAGTG
Found at i:1379532 original size:19 final size:19
Alignment explanation
Indices: 1379491--1379532 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
1379481 ATGTATGGTG
***
1379491 ATAAAATTATAGTGTGGTG
1 ATAAAATTATAGTGTGCAA
1379510 ATAAAATTATAGTGTGCAA
1 ATAAAATTATAGTGTGCAA
1379529 ATAA
1 ATAA
1379533 TGGAAGTATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.45, C:0.02, G:0.19, T:0.33
Consensus pattern (19 bp):
ATAAAATTATAGTGTGCAA
Found at i:1384535 original size:153 final size:153
Alignment explanation
Indices: 1384341--1384647 Score: 605
Period size: 153 Copynumber: 2.0 Consensus size: 153
1384331 AGAATGCAAA
1384341 TGACCCAAGAATATCACCAAGCCCAGGAATAATTGGATATCCTCAAGCTCTGAAATAACTGAAAT
1 TGACCCAAGAATATCACCAAGCCCAGGAATAATTGGATATCCTCAAGCTCTGAAATAACTGAAAT
*
1384406 TACGTTGAGCACCAAAATGATTTTAATATATAACCAAATTGAACTGAAAAAAGTACAATATGTAT
66 AACGTTGAGCACCAAAATGATTTTAATATATAACCAAATTGAACTGAAAAAAGTACAATATGTAT
1384471 CCGAAATTTAGAAACATCCTAAT
131 CCGAAATTTAGAAACATCCTAAT
1384494 TGACCCAAGAATATCACCAAGCCCAGGAATAATTGGATATCCTCAAGCTCTGAAATAACTGAAAT
1 TGACCCAAGAATATCACCAAGCCCAGGAATAATTGGATATCCTCAAGCTCTGAAATAACTGAAAT
1384559 AACGTTGAGCACCAAAATGATTTTAATATATAACCAAATTGAACTGAAAAAAGTACAATATGTAT
66 AACGTTGAGCACCAAAATGATTTTAATATATAACCAAATTGAACTGAAAAAAGTACAATATGTAT
1384624 CCGAAATTTAGAAACATCCTAAT
131 CCGAAATTTAGAAACATCCTAAT
1384647 T
1 T
1384648 ACTTTGGAAA
Statistics
Matches: 153, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
153 153 1.00
ACGTcount: A:0.43, C:0.18, G:0.13, T:0.25
Consensus pattern (153 bp):
TGACCCAAGAATATCACCAAGCCCAGGAATAATTGGATATCCTCAAGCTCTGAAATAACTGAAAT
AACGTTGAGCACCAAAATGATTTTAATATATAACCAAATTGAACTGAAAAAAGTACAATATGTAT
CCGAAATTTAGAAACATCCTAAT
Found at i:1385634 original size:66 final size:66
Alignment explanation
Indices: 1385528--1385657 Score: 192
Period size: 66 Copynumber: 2.0 Consensus size: 66
1385518 GGTATGAAGA
* *
1385528 CTCTGACAGTTTCAGTCGTTGTGGGTAATTCCTTGTATAGGTTCTACACCGACTGGTAATTCCTA
1 CTCTGACAGTTTCAGTCGTTGTGGGTAATTCCTTGTATAGGTTCAACACCGACTAGTAATTCCTA
1385593 T
66 T
* *
1385594 CTCTGGCAGGTTT-AGTCGTTGTTGGTAATTCCTT-TAATAGGTTCAACACCGACTAGTAATTCC
1 CTCTGACA-GTTTCAGTCGTTGTGGGTAATTCCTTGT-ATAGGTTCAACACCGACTAGTAATTCC
1385657 T
64 T
1385658 TATGGACCTA
Statistics
Matches: 58, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
65 1 0.02
66 53 0.91
67 4 0.07
ACGTcount: A:0.21, C:0.21, G:0.21, T:0.38
Consensus pattern (66 bp):
CTCTGACAGTTTCAGTCGTTGTGGGTAATTCCTTGTATAGGTTCAACACCGACTAGTAATTCCTA
T
Found at i:1392663 original size:22 final size:21
Alignment explanation
Indices: 1392629--1392669 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
1392619 ATAATTATTT
1392629 AAAAAATTAAATAAAAATATC
1 AAAAAATTAAATAAAAATATC
*
1392650 AAAAATATTTAATAAAAATA
1 AAAAA-ATTAAATAAAAATA
1392670 ATTTTGTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.71, C:0.02, G:0.00, T:0.27
Consensus pattern (21 bp):
AAAAAATTAAATAAAAATATC
Found at i:1393657 original size:7 final size:7
Alignment explanation
Indices: 1393626--1393682 Score: 51
Period size: 7 Copynumber: 7.4 Consensus size: 7
1393616 AAACTATTTT
1393626 TTTAATAA
1 TTTAAT-A
*
1393634 TTTAAATT
1 TTT-AATA
*
1393642 TTTAGTA
1 TTTAATA
1393649 TTTAATA
1 TTTAATA
1393656 TTTAATA
1 TTTAATA
1393663 TATTAAATA
1 T-TT-AATA
1393672 TCTTAATA
1 T-TTAATA
1393680 TTT
1 TTT
1393683 GTTTTTGTTT
Statistics
Matches: 41, Mismatches: 5, Indels: 7
0.77 0.09 0.13
Matches are distributed among these distances:
7 18 0.44
8 13 0.32
9 10 0.24
ACGTcount: A:0.40, C:0.02, G:0.02, T:0.56
Consensus pattern (7 bp):
TTTAATA
Found at i:1402307 original size:157 final size:157
Alignment explanation
Indices: 1401998--1402313 Score: 614
Period size: 157 Copynumber: 2.0 Consensus size: 157
1401988 TCAGATGTAG
1401998 TAGGCTCTTCAAGTTCAGCAGGCTGGGGACTCTCTGCACCATGATATTGAGGGGCATCGTTATTG
1 TAGGCTCTTCAAGTTCAGCAGGCTGGGGACTCTCTGCACCATGATATTGAGGGGCATCGTTATTG
1402063 GTAGGACAAGGTATTTATGCAGATGCCTCGGTATCCTCATTCGATGGCACGTATGTCAGGGAAGA
66 GTAGGACAAGGTATTTATGCAGATGCCTCGGTATCCTCATTCGATGGCACGTATGTCAGGGAAGA
1402128 CATGAATGGTGAAGTTTGTGTGTGGAA
131 CATGAATGGTGAAGTTTGTGTGTGGAA
1402155 TAGGCTCTTCAAGTTCAGCAGGCTGGGGACTCTCTGCACCATGATATTGAGGGGCATCGTTATTG
1 TAGGCTCTTCAAGTTCAGCAGGCTGGGGACTCTCTGCACCATGATATTGAGGGGCATCGTTATTG
1402220 GTAGGACAAGGTATTTATGCAGATGCCTCGGTATCCTCATTCGATGGCACGAGTATGTCAGGGAA
66 GTAGGACAAGGTATTTATGCAGATGCCTCGGTATCCTCATTCGATGGCAC--GTATGTCAGGGAA
1402285 GACATGAATGGTGAAGTTTGTGTGTGGAA
129 GACATGAATGGTGAAGTTTGTGTGTGGAA
1402314 GGAATTCCAT
Statistics
Matches: 157, Mismatches: 0, Indels: 2
0.99 0.00 0.01
Matches are distributed among these distances:
157 115 0.73
159 42 0.27
ACGTcount: A:0.24, C:0.17, G:0.31, T:0.28
Consensus pattern (157 bp):
TAGGCTCTTCAAGTTCAGCAGGCTGGGGACTCTCTGCACCATGATATTGAGGGGCATCGTTATTG
GTAGGACAAGGTATTTATGCAGATGCCTCGGTATCCTCATTCGATGGCACGTATGTCAGGGAAGA
CATGAATGGTGAAGTTTGTGTGTGGAA
Found at i:1411254 original size:89 final size:91
Alignment explanation
Indices: 1411097--1411276 Score: 346
Period size: 89 Copynumber: 2.0 Consensus size: 91
1411087 GAGTATGAGA
1411097 ACTAGAAAATTACGTGGTTATGTTTTAATCTCTATACGAAGCCTGTGAACTAGAAAAATGTGGCT
1 ACTAGAAAATTACGTGGTTATGTTTTAATCTCTATACGAAGCCTGTGAACTAGAAAAATGTGGCT
1411162 AGGATTTAGTTGCCAAAT-AAAGCAT
66 AGGATTTAGTTGCCAAATAAAAGCAT
1411187 ACTAG-AAATTACGTGGTTATGTTTTAATCTCTATACGAAGCCTGTGAACTAGAAAAATGTGGCT
1 ACTAGAAAATTACGTGGTTATGTTTTAATCTCTATACGAAGCCTGTGAACTAGAAAAATGTGGCT
1411251 AGGATTTAGTTGCCAAATAAAAGCAT
66 AGGATTTAGTTGCCAAATAAAAGCAT
1411277 TAGGTTAAAA
Statistics
Matches: 89, Mismatches: 0, Indels: 2
0.98 0.00 0.02
Matches are distributed among these distances:
89 77 0.87
90 12 0.13
ACGTcount: A:0.36, C:0.13, G:0.20, T:0.31
Consensus pattern (91 bp):
ACTAGAAAATTACGTGGTTATGTTTTAATCTCTATACGAAGCCTGTGAACTAGAAAAATGTGGCT
AGGATTTAGTTGCCAAATAAAAGCAT
Found at i:1414622 original size:83 final size:84
Alignment explanation
Indices: 1414483--1414655 Score: 330
Period size: 83 Copynumber: 2.1 Consensus size: 84
1414473 GTCTAAGGAA
1414483 CATATGTCCAAGCTGATGAATATGATGGTTACAGTAATATATAGGGAGAAACCGTTAGAGGACCC
1 CATATGTCCAAGCTGATGAATATGATGGTTACAGTAATATATAGGGAGAAACCGTTAGAGGACCC
1414548 TGT-AAAACTTTGAGTTAG
66 TGTAAAAACTTTGAGTTAG
1414566 CATATGTCCAAGCTGATGAATATGATGGTTACAGTAATATATAGGGAGAAACCGTTAGAGGACCC
1 CATATGTCCAAGCTGATGAATATGATGGTTACAGTAATATATAGGGAGAAACCGTTAGAGGACCC
1414631 TGTAAAAACTTTGAGTTAG
66 TGTAAAAACTTTGAGTTAG
*
1414650 AATATG
1 CATATG
1414656 AATGTTAGTG
Statistics
Matches: 88, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
83 68 0.77
84 20 0.23
ACGTcount: A:0.36, C:0.13, G:0.24, T:0.28
Consensus pattern (84 bp):
CATATGTCCAAGCTGATGAATATGATGGTTACAGTAATATATAGGGAGAAACCGTTAGAGGACCC
TGTAAAAACTTTGAGTTAG
Found at i:1418643 original size:17 final size:16
Alignment explanation
Indices: 1418621--1418654 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
1418611 TAAAAACAGT
1418621 AAATAAAAAGATAAATA
1 AAATAAAAAGA-AAATA
*
1418638 AAATAAGAAGAAAATA
1 AAATAAAAAGAAAATA
1418654 A
1 A
1418655 TCCTCACGTG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 6 0.38
17 10 0.62
ACGTcount: A:0.76, C:0.00, G:0.09, T:0.15
Consensus pattern (16 bp):
AAATAAAAAGAAAATA
Found at i:1421523 original size:19 final size:20
Alignment explanation
Indices: 1421501--1421544 Score: 63
Period size: 20 Copynumber: 2.2 Consensus size: 20
1421491 GAGAAAAGGT
1421501 AAAAGTTAA-AATGAAAGAG
1 AAAAGTTAATAATGAAAGAG
* *
1421520 AAAAATTAATAATGAAAGAT
1 AAAAGTTAATAATGAAAGAG
1421540 AAAAG
1 AAAAG
1421545 AAAAAGTTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
19 8 0.38
20 13 0.62
ACGTcount: A:0.66, C:0.00, G:0.16, T:0.18
Consensus pattern (20 bp):
AAAAGTTAATAATGAAAGAG
Found at i:1429355 original size:15 final size:16
Alignment explanation
Indices: 1429335--1429365 Score: 55
Period size: 15 Copynumber: 2.0 Consensus size: 16
1429325 GAATTTGTGC
1429335 CATTTCAT-CATACAT
1 CATTTCATACATACAT
1429350 CATTTCATACATACAT
1 CATTTCATACATACAT
1429366 GATAATTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.53
16 7 0.47
ACGTcount: A:0.35, C:0.26, G:0.00, T:0.39
Consensus pattern (16 bp):
CATTTCATACATACAT
Found at i:1429650 original size:38 final size:38
Alignment explanation
Indices: 1429570--1430066 Score: 514
Period size: 38 Copynumber: 13.0 Consensus size: 38
1429560 AATATTTCAA
* * * *
1429570 TGTTATTCTTGACTTCCTAGTGAAAAAAAAAGTCAATATT
1 TGTTATTCTTGACTTCCTCGTG--AAGAGAAGTCAATCTT
* *
1429610 TGTTATTTTTGACTTCCTCGCGAAGAGAAGTCAATCTT
1 TGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATCTT
** * * *
1429648 TGTTATTCCCGACTCCCTCGTGAAGAGGAGTCAGTCTT
1 TGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATCTT
* * * *
1429686 TATTATTCCTGACTCCCTCGTGAAGAGGAGTCAATCTT
1 TGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATCTT
* *
1429724 TTTTATTCTCGACTTCCTCGTGAAGAGAAGTCAATCTT
1 TGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATCTT
* * * *
1429762 TGTTATTCTTGAATTTCTCGTCAAGAAAAGTCAATCTT
1 TGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATCTT
* * ** *
1429800 TGTTATTCATGACTCCCTCACGAAGAGGAGTCAATCTT
1 TGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATCTT
* * *
1429838 TGTTATTCTTGACTTCCTCGTGAGGAGAAGTCAACCAT
1 TGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATCTT
* * ** *
1429876 TGTTATTCCTGACTCCCTCACGAGGAGGAA-TCAATC--
1 TGTTATTCTTGACTTCCTCGTGAAGA-GAAGTCAATCTT
* * * * *
1429912 TGTTATTCTCGACTTCCTAGTGAAGAGAAATTAGTCTT
1 TGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATCTT
* * *
1429950 TGTTATTCTTGACTCCCTCGCGAAGAGGAGTCAATCTTT
1 TGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATC-TT
*
1429989 CAATGTTAATCTTGACTTCCTCGTGAAGAGAAGTCAATCTT
1 ---TGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATCTT
*
1430030 TGTTATTCTTGACTTTCTCGTGAAGAGAAGTCAATCT
1 TGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATCT
1430067 CTTAGTATTG
Statistics
Matches: 377, Mismatches: 72, Indels: 18
0.81 0.15 0.04
Matches are distributed among these distances:
35 3 0.01
36 23 0.06
38 293 0.78
39 5 0.01
40 19 0.05
41 2 0.01
42 32 0.08
ACGTcount: A:0.26, C:0.20, G:0.18, T:0.36
Consensus pattern (38 bp):
TGTTATTCTTGACTTCCTCGTGAAGAGAAGTCAATCTT
Found at i:1430139 original size:45 final size:43
Alignment explanation
Indices: 1429999--1430202 Score: 154
Period size: 45 Copynumber: 4.7 Consensus size: 43
1429989 CAATGTTAAT
* * **
1429999 CTTGACTTCCTCGTGAAGAGAAGTCAATCTTTGTTA-T--T--
1 CTTGACTTTCTCGTGAAGAGAAGTCAATATTTAATATTGCTAC
* * *
1430037 CTTGACTTTCTCGTGAAGAGAAGTCAATCTCTTAGTATTGCTAT
1 CTTGACTTTCTCGTGAAGAGAAGTCAATAT-TTAATATTGCTAC
* *
1430081 CTTGACTTTCTCGTGTAGATG-AGTCAATATTTCAATGTTGTCTAC
1 CTTGACTTTCTCGTGAAGA-GAAGTCAATATTT-AATATTG-CTAC
* *
1430126 CTTGACTTTCTCGTGAAGAGAAGTCTATATTT--TAGTGCTATCC
1 CTTGACTTTCTCGTGAAGAGAAGTCAATATTTAATATTGCTA--C
* * *
1430169 TTCTTGACTTTCTTGCGAAGAGGAGTCAATATTT
1 --CTTGACTTTCTCGTGAAGAGAAGTCAATATTT
1430203 TAGATTTAGT
Statistics
Matches: 136, Mismatches: 16, Indels: 21
0.79 0.09 0.12
Matches are distributed among these distances:
38 29 0.21
39 4 0.03
40 1 0.01
41 3 0.02
42 4 0.03
43 3 0.02
44 32 0.24
45 60 0.44
ACGTcount: A:0.24, C:0.18, G:0.19, T:0.40
Consensus pattern (43 bp):
CTTGACTTTCTCGTGAAGAGAAGTCAATATTTAATATTGCTAC
Found at i:1430519 original size:134 final size:134
Alignment explanation
Indices: 1430200--1430520 Score: 430
Period size: 134 Copynumber: 2.4 Consensus size: 134
1430190 GGAGTCAATA
** *
1430200 TTTTAGATTTAGTCTTCCTGAAGAGCAGTGAAGCAAATTGATTCTGATTCAATCTTCCCTGAAGA
1 TTTTAGATTTAGTCTTCCTGAAGAGCAGTGAAGCAAATCAATTC-GATTCAACCTTCCCTGAAGA
* * *
1430265 GCAGTGAAGTGAATCAAAATTTTTCTCTAGTCTGATCTTCCTTAAAGAGTAGCGGAGAAAATTCT
65 GCAGCGAAGTGAATCAAAATTTTTCTCGAGTCTGATCTTCCGTAAAGAGTAGCGGAGAAAATTCT
1430330 TCTTC
130 TCTTC
* ** *
1430335 TTTCAGATTTAGTCTTCCTGAAGAGCAACGAAGCAAATCAAGTTCAATTCAACCTTCCCTGAAGA
1 TTTTAGATTTAGTCTTCCTGAAGAGCAGTGAAGCAAATCAA-TTCGATTCAACCTTCCCTGAAGA
* * * * **
1430400 GCAGCGAAGTGGATTAAAGA-TTTT-TCGAGTCTGATCTTCCGTAAAGAGTAGTGGAGCAGGTTC
65 GCAGCGAAGTGAATCAAA-ATTTTTCTCGAGTCTGATCTTCCGTAAAGAGTAGCGGAGAAAATTC
1430463 TTCTTC
129 TTCTTC
* *
1430469 TTTTAGATTTGGTCTTCCTGAAGAGCAGTGAAGCAAATCAACCTCGATTCAA
1 TTTTAGATTTAGTCTTCCTGAAGAGCAGTGAAGCAAATCAA-TTCGATTCAA
1430521 TTATCCCTTG
Statistics
Matches: 161, Mismatches: 23, Indels: 5
0.85 0.12 0.03
Matches are distributed among these distances:
134 84 0.52
135 73 0.45
136 4 0.02
ACGTcount: A:0.30, C:0.18, G:0.20, T:0.32
Consensus pattern (134 bp):
TTTTAGATTTAGTCTTCCTGAAGAGCAGTGAAGCAAATCAATTCGATTCAACCTTCCCTGAAGAG
CAGCGAAGTGAATCAAAATTTTTCTCGAGTCTGATCTTCCGTAAAGAGTAGCGGAGAAAATTCTT
CTTC
Found at i:1430682 original size:3 final size:3
Alignment explanation
Indices: 1430674--1430739 Score: 125
Period size: 3 Copynumber: 22.3 Consensus size: 3
1430664 TTTTTGTCCC
1430674 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1430722 ATT ATT ATT A-T ATT ATT A
1 ATT ATT ATT ATT ATT ATT A
1430740 AATAATTATA
Statistics
Matches: 62, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
2 2 0.03
3 60 0.97
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (3 bp):
ATT
Found at i:1436086 original size:24 final size:24
Alignment explanation
Indices: 1436059--1436108 Score: 66
Period size: 24 Copynumber: 2.1 Consensus size: 24
1436049 TGGTGGTTGA
*
1436059 TTTAATGGT-TGTTTAAACTTTATT
1 TTTAATGGTATATTT-AACTTTATT
*
1436083 TTTAATGGTATATTTAAGTTTATT
1 TTTAATGGTATATTTAACTTTATT
1436107 TT
1 TT
1436109 GGTTCTTTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 19 0.83
25 4 0.17
ACGTcount: A:0.26, C:0.02, G:0.12, T:0.60
Consensus pattern (24 bp):
TTTAATGGTATATTTAACTTTATT
Found at i:1439841 original size:394 final size:394
Alignment explanation
Indices: 1439113--1439889 Score: 1464
Period size: 394 Copynumber: 2.0 Consensus size: 394
1439103 CTTAATGCCG
1439113 AAATCGATATTCTTGAAGCTTGGCATAGGAGATGCAAGACCCACCTCAGTTATTTTACAACTTGC
1 AAATCGATATTCTTGAAGCTTGGCATAGGAGATGCAAGACCCACCTCAGTTATTTTACAACTTGC
*
1439178 CGACAAATCCCATGTTAAACCTGAAGGGAGAGTCGAGGATGTCATAGTAAGGGTGGACAAGTTTG
66 CAACAAATCCCATGTTAAACCTGAAGGGAGAGTCGAGGATGTCATAGTAAGGGTGGACAAGTTTG
*
1439243 TGTTTCCAGTCGACTTCTTAATTCTGGACTGTGAAGTTGATGCCAAGGCACCAATCATTCTGGGA
131 TGTTTCCAGTCGACTTCTTAATTCTGGACTGTGAAGTTGATGCCAAGGCACCAATCATTCTAGGA
1439308 AGACCTTTCCTAGCCACTGGACGTATCTTGATAGACTGTGAAAAAGGTGAACTCACCATGAGAGT
196 AGACCTTTCCTAGCCACTGGACGTATCTTGATAGACTGTGAAAAAGGTGAACTCACCATGAGAGT
* *
1439373 GGCTGATCAGTGTGTGACTGTCAATGTTTTTAGAACGCTCAAATATGTTGATGACACTGAAGATT
261 GGCTGATCAGTGTATGACTGTCAATGTTTTTAGAACGCTCAAATATGTTGATGACACTGAAGAAT
* *
1439438 GCCAAGGCATTTCTGAATTGAACTCAGTGATTGAAGAATAGACTGAACATCTTTGCCAATTTTAG
326 GCCAAGGCATTTCTGAATTGAACTCAGTGATTGAAAAAGAGACTGAACATCTTTGCCAATTTTAG
1439503 CAGA
391 CAGA
1439507 AAATCGATATTCTTGAAGCTTGGCATAGGAGATGCAAGACCCACCTCAGTTATTTTACAACTTGC
1 AAATCGATATTCTTGAAGCTTGGCATAGGAGATGCAAGACCCACCTCAGTTATTTTACAACTTGC
1439572 CAACAAATCCCATGTTAAACCTGAAGGGAGAGTCGAGGATGTCATAGTAAGGGTGGACAAGTTTG
66 CAACAAATCCCATGTTAAACCTGAAGGGAGAGTCGAGGATGTCATAGTAAGGGTGGACAAGTTTG
1439637 TGTTTCCAGTCGACTTCTTAATTCTGGACTGTGAAGTTGATGCCAAGGCACCAATCATTCTAGGA
131 TGTTTCCAGTCGACTTCTTAATTCTGGACTGTGAAGTTGATGCCAAGGCACCAATCATTCTAGGA
*
1439702 AGACCTTTCCTAGCCACTGGACGTATCTTGATAGATTGTGAAAAAGGTGAACTCACCATGAGAGT
196 AGACCTTTCCTAGCCACTGGACGTATCTTGATAGACTGTGAAAAAGGTGAACTCACCATGAGAGT
* *
1439767 GGCTGATCAGTGTATGACTGTTAATGTTTTTAGAACGCTCAAATATGTTGATGACATTGAAGAAT
261 GGCTGATCAGTGTATGACTGTCAATGTTTTTAGAACGCTCAAATATGTTGATGACACTGAAGAAT
*
1439832 GTCAAGGCATTTCTGAATTGAACTCAGTGATTGAAAAAGAGACTGAACATCTTTGCCA
326 GCCAAGGCATTTCTGAATTGAACTCAGTGATTGAAAAAGAGACTGAACATCTTTGCCA
1439890 GAACAACTTC
Statistics
Matches: 373, Mismatches: 10, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
394 373 1.00
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.29
Consensus pattern (394 bp):
AAATCGATATTCTTGAAGCTTGGCATAGGAGATGCAAGACCCACCTCAGTTATTTTACAACTTGC
CAACAAATCCCATGTTAAACCTGAAGGGAGAGTCGAGGATGTCATAGTAAGGGTGGACAAGTTTG
TGTTTCCAGTCGACTTCTTAATTCTGGACTGTGAAGTTGATGCCAAGGCACCAATCATTCTAGGA
AGACCTTTCCTAGCCACTGGACGTATCTTGATAGACTGTGAAAAAGGTGAACTCACCATGAGAGT
GGCTGATCAGTGTATGACTGTCAATGTTTTTAGAACGCTCAAATATGTTGATGACACTGAAGAAT
GCCAAGGCATTTCTGAATTGAACTCAGTGATTGAAAAAGAGACTGAACATCTTTGCCAATTTTAG
CAGA
Found at i:1446774 original size:25 final size:24
Alignment explanation
Indices: 1446724--1446774 Score: 68
Period size: 24 Copynumber: 2.1 Consensus size: 24
1446714 TGGTGGTTGA
*
1446724 TTTAATGGTTGTTTAAACTTTATT
1 TTTAATGGTTATTTAAACTTTATT
*
1446748 TTTAATGGTATATTT-AAGTTTATT
1 TTTAATGGT-TATTTAAACTTTATT
1446772 TTT
1 TTT
1446775 GGTTCTTTAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
24 20 0.83
25 4 0.17
ACGTcount: A:0.25, C:0.02, G:0.12, T:0.61
Consensus pattern (24 bp):
TTTAATGGTTATTTAAACTTTATT
Found at i:1449279 original size:82 final size:83
Alignment explanation
Indices: 1449133--1449304 Score: 242
Period size: 82 Copynumber: 2.1 Consensus size: 83
1449123 TTTTTTAGTG
* *
1449133 AAAAT-ATTAACTTTGCTACCTAATTTTCGGTAGAAAAAAATAACATTTTAGATAGCACCTAATA
1 AAAATAATTAACTTTGCTACCTAATTTTCAGTAGAAAAAAATAACATTTTAGATAGCACCCAATA
*
1449197 TTAATATTTTCGATAGAA
66 TTAACATTTTCGATAGAA
* * * * *
1449215 AAAATAATTAATTTTGCTGCCTAA-TTTCTATTAG-AAAAAATAACATTTTAGGTAGCGCCCAAT
1 AAAATAATTAACTTTGCTACCTAATTTTC-AGTAGAAAAAAATAACATTTTAGATAGCACCCAAT
1449278 ATTAACATTTTCGATAGAA
65 ATTAACATTTTCGATAGAA
1449297 AAAATAAT
1 AAAATAAT
1449305 GTTTTAGGTA
Statistics
Matches: 80, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
82 61 0.76
83 19 0.24
ACGTcount: A:0.43, C:0.12, G:0.10, T:0.35
Consensus pattern (83 bp):
AAAATAATTAACTTTGCTACCTAATTTTCAGTAGAAAAAAATAACATTTTAGATAGCACCCAATA
TTAACATTTTCGATAGAA
Found at i:1449625 original size:23 final size:23
Alignment explanation
Indices: 1449595--1449640 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
1449585 CCCTATTCCC
1449595 ATATGTAATAGGATAAGGGGAGG
1 ATATGTAATAGGATAAGGGGAGG
*
1449618 ATATGTAATGGGATAAGGGGAGG
1 ATATGTAATAGGATAAGGGGAGG
1449641 TAAGATAGTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.37, C:0.00, G:0.41, T:0.22
Consensus pattern (23 bp):
ATATGTAATAGGATAAGGGGAGG
Found at i:1451959 original size:4 final size:4
Alignment explanation
Indices: 1451950--1452001 Score: 77
Period size: 4 Copynumber: 13.0 Consensus size: 4
1451940 TTAGAATTTT
* * *
1451950 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TATA TATA TATA
1 TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA TCTA
1451998 TCTA
1 TCTA
1452002 AAATAATATA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
4 46 1.00
ACGTcount: A:0.31, C:0.19, G:0.00, T:0.50
Consensus pattern (4 bp):
TCTA
Found at i:1454354 original size:11 final size:11
Alignment explanation
Indices: 1454330--1454365 Score: 54
Period size: 11 Copynumber: 3.3 Consensus size: 11
1454320 TTTATGCTGG
*
1454330 AAACAAGATAA
1 AAACAAGATTA
*
1454341 AAATAAGATTA
1 AAACAAGATTA
1454352 AAACAAGATTA
1 AAACAAGATTA
1454363 AAA
1 AAA
1454366 AAAAAGATAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
11 22 1.00
ACGTcount: A:0.69, C:0.06, G:0.08, T:0.17
Consensus pattern (11 bp):
AAACAAGATTA
Found at i:1458588 original size:13 final size:13
Alignment explanation
Indices: 1458572--1458601 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
1458562 TTTTTGTTTG
*
1458572 TTTTTTTGGCTTT
1 TTTTTTTGCCTTT
1458585 TTTTTTTGCCTTT
1 TTTTTTTGCCTTT
1458598 TTTT
1 TTTT
1458602 GTATTTTTTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.00, C:0.10, G:0.10, T:0.80
Consensus pattern (13 bp):
TTTTTTTGCCTTT
Done.