Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 ID=Chr04-JGI_221_v2.0
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: 62178258
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 912357 characters in sequence are not A, C, G, or T
File 108 of 198
Found at i:34597553 original size:29 final size:29
Alignment explanation
Indices: 34597519--34597783 Score: 229
Period size: 29 Copynumber: 9.3 Consensus size: 29
34597509 CAGAGTCTTA
* * *
34597519 CCACAAAGGCACCCTTTTAAAAGAGTTAG
1 CCACAAAGGCATCCTTTTAACAGAGATAG
* * *
34597548 TCACAAAGGTATCCTATTAACAGAGATAG
1 CCACAAAGGCATCCTTTTAACAGAGATAG
*
34597577 CCACAAAGTCATCCTTTTAACAGAGATAG
1 CCACAAAGGCATCCTTTTAACAGAGATAG
* *
34597606 CCACAAAGTCATCCTTTTAATAGAGATAG
1 CCACAAAGGCATCCTTTTAACAGAGATAG
* * **
34597635 CCACAAAGGAATCCTTTTAAGATCGATAG
1 CCACAAAGGCATCCTTTTAACAGAGATAG
* * ** *
34597664 CCACAAAGGCATTCATTTAACTTAGATCG
1 CCACAAAGGCATCCTTTTAACAGAGATAG
* * * * *
34597693 ACACAAAGAC-TTCTTTGTAATAGAGATCG
1 CCACAAAGGCATCCTTT-TAACAGAGATAG
* *
34597722 CTACAAAGGCTTCC-TTT--CAGAGATAG
1 CCACAAAGGCATCCTTTTAACAGAGATAG
* *
34597748 CCACAAAGGCTTCCATTT---AGAGATAG
1 CCACAAAGGCATCCTTTTAACAGAGATAG
34597774 CCACAAAGGC
1 CCACAAAGGC
34597784 TCATTTATAC
Statistics
Matches: 197, Mismatches: 36, Indels: 9
0.81 0.15 0.04
Matches are distributed among these distances:
26 38 0.19
27 3 0.02
28 6 0.03
29 148 0.75
30 2 0.01
ACGTcount: A:0.37, C:0.22, G:0.17, T:0.24
Consensus pattern (29 bp):
CCACAAAGGCATCCTTTTAACAGAGATAG
Found at i:34598659 original size:24 final size:24
Alignment explanation
Indices: 34598632--34598705 Score: 64
Period size: 24 Copynumber: 3.2 Consensus size: 24
34598622 TTTAAATATG
34598632 CTTAATAATTAATTCATTTGTTAC
1 CTTAATAATTAATTCATTTGTTAC
* * * ** *
34598656 CTTACATTA-CAATTTAAAT-ATA-
1 CTTA-ATAATTAATTCATTTGTTAC
34598678 CTTAATAATTAATTCATTTGTTAC
1 CTTAATAATTAATTCATTTGTTAC
34598702 CTTA
1 CTTA
34598706 CATTTTACAA
Statistics
Matches: 34, Mismatches: 12, Indels: 8
0.63 0.22 0.15
Matches are distributed among these distances:
21 3 0.09
22 10 0.29
23 4 0.12
24 14 0.41
25 3 0.09
ACGTcount: A:0.36, C:0.14, G:0.03, T:0.47
Consensus pattern (24 bp):
CTTAATAATTAATTCATTTGTTAC
Found at i:34598671 original size:46 final size:46
Alignment explanation
Indices: 34598615--34598709 Score: 181
Period size: 46 Copynumber: 2.1 Consensus size: 46
34598605 TTGTCAATTA
*
34598615 ATTACAATTTAAATATGCTTAATAATTAATTCATTTGTTACCTTAC
1 ATTACAATTTAAATATACTTAATAATTAATTCATTTGTTACCTTAC
34598661 ATTACAATTTAAATATACTTAATAATTAATTCATTTGTTACCTTAC
1 ATTACAATTTAAATATACTTAATAATTAATTCATTTGTTACCTTAC
34598707 ATT
1 ATT
34598710 TTACAATGCA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 48 1.00
ACGTcount: A:0.38, C:0.13, G:0.03, T:0.46
Consensus pattern (46 bp):
ATTACAATTTAAATATACTTAATAATTAATTCATTTGTTACCTTAC
Found at i:34599897 original size:14 final size:14
Alignment explanation
Indices: 34599880--34599908 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
34599870 TGTGTTTCCA
34599880 ATAAACTCTTTCAC
1 ATAAACTCTTTCAC
34599894 ATAAACTCTTTCAC
1 ATAAACTCTTTCAC
34599908 A
1 A
34599909 ATAGACATGT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.38, C:0.28, G:0.00, T:0.34
Consensus pattern (14 bp):
ATAAACTCTTTCAC
Found at i:34603104 original size:28 final size:28
Alignment explanation
Indices: 34603057--34603300 Score: 199
Period size: 28 Copynumber: 8.8 Consensus size: 28
34603047 GATGACCACA
* * * * *
34603057 AAGGTTTCTATTTCTTAGATCCGTCACG
1 AAGGCTTCCATTTCATAGATTCGTCATG
* **
34603085 AAGGCTTCCATTTCAAAGATTCACCATG
1 AAGGCTTCCATTTCATAGATTCGTCATG
* * * *
34603113 AAGGCTTTCATTTTATAGATTTGCCATG
1 AAGGCTTCCATTTCATAGATTCGTCATG
* * **
34603141 AAGGCTTCCATTTCATATATT-GGCACA
1 AAGGCTTCCATTTCATAGATTCGTCATG
* * * *
34603168 AAGCCTTCCATTTCTTAGATCCGCCATG
1 AAGGCTTCCATTTCATAGATTCGTCATG
*
34603196 AAGGCTTCAATTTCATAGATTC-TCCATG
1 AAGGCTTCCATTTCATAGATTCGT-CATG
*
34603224 AAGGCTTCCATTTCATAAATTC-TCCATG
1 AAGGCTTCCATTTCATAGATTCGT-CATG
*
34603252 AAGGCTTCCATTTCATAGATTC-TCCACG
1 AAGGCTTCCATTTCATAGATTCGT-CATG
* * *
34603280 AAGACTTCAATTTCACAGATT
1 AAGGCTTCCATTTCATAGATT
34603301 GCCACAAAGG
Statistics
Matches: 176, Mismatches: 38, Indels: 4
0.81 0.17 0.02
Matches are distributed among these distances:
27 20 0.11
28 156 0.89
ACGTcount: A:0.27, C:0.23, G:0.14, T:0.35
Consensus pattern (28 bp):
AAGGCTTCCATTTCATAGATTCGTCATG
Found at i:34603251 original size:111 final size:111
Alignment explanation
Indices: 34603066--34603268 Score: 318
Period size: 111 Copynumber: 1.8 Consensus size: 111
34603056 AAAGGTTTCT
* * * * *
34603066 ATTTCTTAGATCCGTCACGAAGGCTTCCATTTCAAAGATTCACCATGAAGGCTTTCATTTTATAG
1 ATTTCTTAGATCCGCCACGAAGGCTTCAATTTCAAAGATTCACCATGAAGGCTTCCATTTCATAA
34603131 ATTTGCCATGAAGGCTTCCATTTCATATATTGGCACAAAGCCTTCC
66 ATTTGCCATGAAGGCTTCCATTTCATATATTGGCACAAAGCCTTCC
* * *
34603177 ATTTCTTAGATCCGCCATGAAGGCTTCAATTTCATAGATTCTCCATGAAGGCTTCCATTTCATAA
1 ATTTCTTAGATCCGCCACGAAGGCTTCAATTTCAAAGATTCACCATGAAGGCTTCCATTTCATAA
34603242 ATTCT-CCATGAAGGCTTCCATTTCATA
66 ATT-TGCCATGAAGGCTTCCATTTCATA
34603269 GATTCTCCAC
Statistics
Matches: 83, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
111 82 0.99
112 1 0.01
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.35
Consensus pattern (111 bp):
ATTTCTTAGATCCGCCACGAAGGCTTCAATTTCAAAGATTCACCATGAAGGCTTCCATTTCATAA
ATTTGCCATGAAGGCTTCCATTTCATATATTGGCACAAAGCCTTCC
Found at i:34603258 original size:56 final size:56
Alignment explanation
Indices: 34603084--34603300 Score: 242
Period size: 56 Copynumber: 3.9 Consensus size: 56
34603074 GATCCGTCAC
* * * *
34603084 GAAGGCTTCCATTTCAAAGATTCACCATGAAGGCTTTCATTTTATAGATT-TGCCAT
1 GAAGGCTTCCATTTCATAGATTCTCCATGAAGGCTTCCATTTCATAGATTCT-CCAT
* ** * * * *
34603140 GAAGGCTTCCATTTCATATATTGGCACA--AAGCCTTCCATTTCTTAGATCCGCCAT
1 GAAGGCTTCCATTTCATAGATTCTC-CATGAAGGCTTCCATTTCATAGATTCTCCAT
* *
34603195 GAAGGCTTCAATTTCATAGATTCTCCATGAAGGCTTCCATTTCATAAATTCTCCAT
1 GAAGGCTTCCATTTCATAGATTCTCCATGAAGGCTTCCATTTCATAGATTCTCCAT
* * * *
34603251 GAAGGCTTCCATTTCATAGATTCTCCACGAAGACTTCAATTTCACAGATT
1 GAAGGCTTCCATTTCATAGATTCTCCATGAAGGCTTCCATTTCATAGATT
34603301 GCCACAAAGG
Statistics
Matches: 132, Mismatches: 25, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
54 2 0.02
55 41 0.31
56 87 0.66
57 2 0.02
ACGTcount: A:0.28, C:0.24, G:0.14, T:0.34
Consensus pattern (56 bp):
GAAGGCTTCCATTTCATAGATTCTCCATGAAGGCTTCCATTTCATAGATTCTCCAT
Found at i:34603320 original size:111 final size:111
Alignment explanation
Indices: 34603073--34603320 Score: 284
Period size: 111 Copynumber: 2.2 Consensus size: 111
34603063 TCTATTTCTT
* * * * *
34603073 AGATCCGTCACGAAGGCTTCCATTTCAAAGATTCACCATGAAGGCTTTCATTTTATAGATTTGCC
1 AGATCCGCCACAAAGGCTTCCATTTCAAAGATTCACCATGAAGGCTTCCATTTCATAAATTTGCC
* * * * **
34603138 ATGAAGGCTTCCATTTCATATATTGGCACAAAGCCTTCCATTTCTT
66 ATGAAGGCTTCCATTTCATAGATTGCCACAAAGACTTCAATTTCAC
** * * *
34603184 AGATCCGCCATGAAGGCTTCAATTTCATAGATTCTCCATGAAGGCTTCCATTTCATAAATTCT-C
1 AGATCCGCCACAAAGGCTTCCATTTCAAAGATTCACCATGAAGGCTTCCATTTCATAAATT-TGC
* *
34603248 CATGAAGGCTTCCATTTCATAGATTCTCCACGAAGACTTCAATTTCAC
65 CATGAAGGCTTCCATTTCATAGATT-GCCACAAAGACTTCAATTTCAC
* *
34603296 AGAT-TGCCACAAAGGTTTCCATTTC
1 AGATCCGCCACAAAGGCTTCCATTTC
34603321 TCTAGCCTGT
Statistics
Matches: 114, Mismatches: 21, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
111 94 0.82
112 20 0.18
ACGTcount: A:0.28, C:0.25, G:0.15, T:0.33
Consensus pattern (111 bp):
AGATCCGCCACAAAGGCTTCCATTTCAAAGATTCACCATGAAGGCTTCCATTTCATAAATTTGCC
ATGAAGGCTTCCATTTCATAGATTGCCACAAAGACTTCAATTTCAC
Found at i:34603839 original size:31 final size:31
Alignment explanation
Indices: 34603804--34603866 Score: 81
Period size: 31 Copynumber: 2.0 Consensus size: 31
34603794 GTCATTTGGG
* *
34603804 TTTATCAGGCAATATGTGCCGGTGATTATAT
1 TTTATCAGGCAATATGTACCGGTGACTATAT
* * *
34603835 TTTATCAGGTACTATGTACTGGTGACTATAT
1 TTTATCAGGCAATATGTACCGGTGACTATAT
34603866 T
1 T
34603867 ATCGGGTACT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.25, C:0.13, G:0.21, T:0.41
Consensus pattern (31 bp):
TTTATCAGGCAATATGTACCGGTGACTATAT
Found at i:34605664 original size:45 final size:41
Alignment explanation
Indices: 34605605--34605714 Score: 107
Period size: 45 Copynumber: 2.6 Consensus size: 41
34605595 TTTGGTTCGC
* *
34605605 TGTATTGGATTAGAGGTGTAATAGCAAATCAACTGTTTGGTT
1 TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGG-T
* * ***
34605647 GAATGTAATGGAATAGAGGCGTAATAG-TAATCTTGTGTTTGGT
1 ---TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGT
34605690 TG-AATGGAATAGAGGTGTAATAGCA
1 TGTAATGGAATAGAGGTGTAATAGCA
34605715 TAGTGGAAAA
Statistics
Matches: 55, Mismatches: 9, Indels: 7
0.77 0.13 0.10
Matches are distributed among these distances:
39 20 0.36
40 2 0.04
43 1 0.02
44 11 0.20
45 21 0.38
ACGTcount: A:0.32, C:0.05, G:0.29, T:0.34
Consensus pattern (41 bp):
TGTAATGGAATAGAGGTGTAATAGCAAATCAACTGTTTGGT
Found at i:34605835 original size:18 final size:21
Alignment explanation
Indices: 34605798--34605835 Score: 55
Period size: 18 Copynumber: 2.0 Consensus size: 21
34605788 ATTTAAATTT
34605798 TAATAAGATTATTATTATCAG
1 TAATAAGATTATTATTATCAG
34605819 TAATAA-ATT-TT-TTATCA
1 TAATAAGATTATTATTATCA
34605836 TATTTAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 6 0.35
19 2 0.12
20 3 0.18
21 6 0.35
ACGTcount: A:0.42, C:0.05, G:0.05, T:0.47
Consensus pattern (21 bp):
TAATAAGATTATTATTATCAG
Found at i:34607609 original size:31 final size:31
Alignment explanation
Indices: 34607574--34607637 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
34607564 CATGCAGTGG
34607574 CATCTATGCCAACACTACATAACCACTCAAC
1 CATCTATGCCAACACTACATAACCACTCAAC
34607605 CATCTATGCCAACACTACATAACCACTCAAC
1 CATCTATGCCAACACTACATAACCACTCAAC
34607636 CA
1 CA
34607638 ATAAAGCACA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.39, C:0.39, G:0.03, T:0.19
Consensus pattern (31 bp):
CATCTATGCCAACACTACATAACCACTCAAC
Found at i:34609325 original size:42 final size:42
Alignment explanation
Indices: 34609261--34609348 Score: 167
Period size: 42 Copynumber: 2.1 Consensus size: 42
34609251 CGATTAGGGG
34609261 TGTATTGGCTATGCCAACACACCAAACCAAACATGGTGTAAA
1 TGTATTGGCTATGCCAACACACCAAACCAAACATGGTGTAAA
*
34609303 TGTATTGGCTATGCCAATACACCAAACCAAACATGGTGTAAA
1 TGTATTGGCTATGCCAACACACCAAACCAAACATGGTGTAAA
34609345 TGTA
1 TGTA
34609349 ATAGCCCGAT
Statistics
Matches: 45, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 45 1.00
ACGTcount: A:0.38, C:0.22, G:0.17, T:0.24
Consensus pattern (42 bp):
TGTATTGGCTATGCCAACACACCAAACCAAACATGGTGTAAA
Found at i:34609731 original size:21 final size:21
Alignment explanation
Indices: 34609669--34609721 Score: 106
Period size: 21 Copynumber: 2.5 Consensus size: 21
34609659 AAAGTTAGTA
34609669 TTAAAGTTTCGTTAAGAAATT
1 TTAAAGTTTCGTTAAGAAATT
34609690 TTAAAGTTTCGTTAAGAAATT
1 TTAAAGTTTCGTTAAGAAATT
34609711 TTAAAGTTTCG
1 TTAAAGTTTCG
34609722 ATAATTAATT
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 32 1.00
ACGTcount: A:0.36, C:0.06, G:0.15, T:0.43
Consensus pattern (21 bp):
TTAAAGTTTCGTTAAGAAATT
Found at i:34611910 original size:51 final size:51
Alignment explanation
Indices: 34611834--34612066 Score: 376
Period size: 51 Copynumber: 4.6 Consensus size: 51
34611824 TTTGAGTACT
* * * *
34611834 TCTGATGAGTGACAAGTGGCAAGTGATAAGTAGTAGCTTTAGCTACACTCA
1 TCTGATCAGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTA
34611885 TCTGATCAGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
34611936 TCTGATCAGTGACAAGTAACAAGGGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
34611987 TCTGATCAGTGACAAGTAACAAGTGATAAGTCGTAGCTTTAGCTACACTTA
1 TCTGATCAGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTA
* *
34612038 TCTGATCAGGGATAAGTGACAAGTGATAA
1 TCTGATCAGTGACAAGTGACAAGTGATAA
34612067 ATGTGATCCG
Statistics
Matches: 171, Mismatches: 11, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
51 171 1.00
ACGTcount: A:0.33, C:0.15, G:0.24, T:0.28
Consensus pattern (51 bp):
TCTGATCAGTGACAAGTGACAAGTGATAAGTGGTAGCTTTAGCTACACTTA
Found at i:34620276 original size:31 final size:33
Alignment explanation
Indices: 34620216--34620276 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 33
34620206 TATGGTTTAT
*
34620216 AATATTTTATATTTACTAGCATAAATTATTACA
1 AATATTTCATATTTACTAGCATAAATTATTACA
*
34620249 AATATTTCATATTTA-TAGTA-AAATTATT
1 AATATTTCATATTTACTAGCATAAATTATT
34620277 TAAATTTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
31 8 0.31
32 4 0.15
33 14 0.54
ACGTcount: A:0.43, C:0.07, G:0.03, T:0.48
Consensus pattern (33 bp):
AATATTTCATATTTACTAGCATAAATTATTACA
Found at i:34626268 original size:2 final size:2
Alignment explanation
Indices: 34626261--34626290 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
34626251 CAATTCATTC
34626261 AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
34626291 AACTAATTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:34626546 original size:24 final size:25
Alignment explanation
Indices: 34626496--34626549 Score: 65
Period size: 26 Copynumber: 2.2 Consensus size: 25
34626486 CTTGATGTCA
* *
34626496 TTCTCTCTTTTATTTTCTATCACATT
1 TTCTCTCTTTAATATTC-ATCACATT
*
34626522 TTCTCTCTTTAATATTC-TCATATT
1 TTCTCTCTTTAATATTCATCACATT
34626546 TTCT
1 TTCT
34626550 TCAATTTTTT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 10 0.40
26 15 0.60
ACGTcount: A:0.17, C:0.22, G:0.00, T:0.61
Consensus pattern (25 bp):
TTCTCTCTTTAATATTCATCACATT
Found at i:34627574 original size:21 final size:21
Alignment explanation
Indices: 34627550--34627589 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
34627540 TTGTGATTTT
*
34627550 TCACTATGTAAGATGATGTAA
1 TCACTATGTAAGAGGATGTAA
34627571 TCACTATGTAAGAGGATGT
1 TCACTATGTAAGAGGATGT
34627590 GGATGGCAAG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.10, G:0.23, T:0.33
Consensus pattern (21 bp):
TCACTATGTAAGAGGATGTAA
Found at i:34636325 original size:20 final size:19
Alignment explanation
Indices: 34636302--34636359 Score: 55
Period size: 20 Copynumber: 2.9 Consensus size: 19
34636292 TTATTAATAA
34636302 TTATAAGAAGTTATAAAAAC
1 TTATAA-AAGTTATAAAAAC
* *
34636322 TTATCAAATTTACTAAAAAC
1 TTATAAAAGTTA-TAAAAAC
*
34636342 TAATAAAATGTT-TAAAAA
1 TTATAAAA-GTTATAAAAA
34636360 TAAATAAAAA
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
19 11 0.35
20 18 0.58
21 2 0.06
ACGTcount: A:0.55, C:0.07, G:0.05, T:0.33
Consensus pattern (19 bp):
TTATAAAAGTTATAAAAAC
Found at i:34641301 original size:16 final size:16
Alignment explanation
Indices: 34641280--34641311 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
34641270 AAAAAAATAC
*
34641280 TATTTTTTTATATTAT
1 TATTTTTTTACATTAT
34641296 TATTTTTTTACATTAT
1 TATTTTTTTACATTAT
34641312 AAAAAATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.03, G:0.00, T:0.72
Consensus pattern (16 bp):
TATTTTTTTACATTAT
Found at i:34641720 original size:24 final size:25
Alignment explanation
Indices: 34641674--34641720 Score: 60
Period size: 24 Copynumber: 1.9 Consensus size: 25
34641664 TTTAAGGTTT
*
34641674 AAAAAAATCATATAATTATAATTTC
1 AAAAAAATCATATAATTACAATTTC
**
34641699 AAAAAAAT-ATATTTTTACAATT
1 AAAAAAATCATATAATTACAATT
34641721 CTACAAAATA
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
24 11 0.58
25 8 0.42
ACGTcount: A:0.55, C:0.06, G:0.00, T:0.38
Consensus pattern (25 bp):
AAAAAAATCATATAATTACAATTTC
Found at i:34644615 original size:13 final size:13
Alignment explanation
Indices: 34644597--34644626 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
34644587 TTTTAGTTTT
34644597 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
34644610 ATTGGGTTGGGTA
1 ATTGGGTTGGGTA
34644623 ATTG
1 ATTG
34644627 AGTTTGGGCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.17, C:0.00, G:0.43, T:0.40
Consensus pattern (13 bp):
ATTGGGTTGGGTA
Found at i:34646967 original size:15 final size:16
Alignment explanation
Indices: 34646941--34646973 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
34646931 TAACAGTACT
34646941 AATAACAATAATAATA
1 AATAACAATAATAATA
*
34646957 AATAA-AATAATATTA
1 AATAACAATAATAATA
34646972 AA
1 AA
34646974 CTGTTAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (16 bp):
AATAACAATAATAATA
Found at i:34647788 original size:17 final size:17
Alignment explanation
Indices: 34647746--34647795 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
34647736 ATTTTCGTTT
*
34647746 ATAAAAATAAAAAAATA
1 ATAAAAATAAAAAGATA
*
34647763 ATAATAATAAAAAGATA
1 ATAAAAATAAAAAGATA
*
34647780 A-AAGAAATAGAAAGAT
1 ATAA-AAATAAAAAGAT
34647796 TGAAATAAGA
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
16 2 0.07
17 26 0.93
ACGTcount: A:0.74, C:0.00, G:0.08, T:0.18
Consensus pattern (17 bp):
ATAAAAATAAAAAGATA
Found at i:34648690 original size:44 final size:45
Alignment explanation
Indices: 34648634--34648966 Score: 263
Period size: 44 Copynumber: 7.6 Consensus size: 45
34648624 TTTTAATTCA
* *
34648634 CTCCACTGCAACTTCAGGGAGATAGGA-TTAATAGCTTCAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTAATAGCTTCAACCTG
* * * * *
34648678 TTCCATTCCAACTTCAAGGAGATAAGACTTGCATA--TTCAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTT-AATAGCTTCAACCTG
* * * ** *
34648722 CCCCACTGTAACTTCAGGGGGATAAGGTTTATTA-CTTCAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTAATAGCTTCAACCTG
* * * * ** * *
34648766 CTCTACTGTAACTTCAGAGAGATAAG-GTTTGTAGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTAATAGCTTCAACCTG
* * * **
34648810 CTCCACTGCAACTTCAGGGAGATAAGATTTACTATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTAATAGCTTCAACCTG
* * *
34648855 CTCCACTACAACTTCAGGGAGATAAGACTT-GTTGCTTCAACCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTAATAGCTTCAACCTG
* ** * *
34648899 CTCCACTGCAACTTCAGGGAGACAAGGTTTGATA---T-AATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGACTTAATAGCTTCAACCTG
* *
34648940 CTCTACTGCAACTTCAGAGAGATAAGA
1 CTCCACTGCAACTTCAGGGAGATAAGA
34648967 TTTGCTATCT
Statistics
Matches: 229, Mismatches: 54, Indels: 15
0.77 0.18 0.05
Matches are distributed among these distances:
41 28 0.12
42 1 0.00
43 6 0.03
44 148 0.65
45 43 0.19
46 3 0.01
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (45 bp):
CTCCACTGCAACTTCAGGGAGATAAGACTTAATAGCTTCAACCTG
Found at i:34648879 original size:89 final size:88
Alignment explanation
Indices: 34648634--34648966 Score: 341
Period size: 88 Copynumber: 3.8 Consensus size: 88
34648624 TTTTAATTCA
* * * * *
34648634 CTCCACTGCAACTTCAGGGAGATAGGA-TTAATAGCTTCAATCTGTTCCATTCCAACTTCAAGGA
1 CTCCACTGCAACTTCAGGGAGATAAGATTTAATA-CTTCAATCTGCTCCACTACAACTTCAGGGA
* **
34648698 GATAAGACTTGCATATTCAACCTG
65 GATAAGACTTGTAGCTTCAACCTG
* * * * * * * ** *
34648722 CCCCACTGTAACTTCAGGGGGATAAGGTTTATTACTTCAACCTGCTCTACTGTAACTTCAGAGAG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTAATACTTCAATCTGCTCCACTACAACTTCAGGGAG
** * *
34648787 ATAAGGTTTGTAGCTTTAATCTG
66 ATAAGACTTGTAGCTTCAACCTG
* *
34648810 CTCCACTGCAACTTCAGGGAGATAAGATTTACTATCTTCAGTCTGCTCCACTACAACTTCAGGGA
1 CTCCACTGCAACTTCAGGGAGATAAGATTTAATA-CTTCAATCTGCTCCACTACAACTTCAGGGA
*
34648875 GATAAGACTTGTTGCTTCAACCTG
65 GATAAGACTTGTAGCTTCAACCTG
* * * * * *
34648899 CTCCACTGCAACTTCAGGGAGACAAGGTTTGATA--T-AATCTGCTCTACTGCAACTTCAGAGAG
1 CTCCACTGCAACTTCAGGGAGATAAGATTTAATACTTCAATCTGCTCCACTACAACTTCAGGGAG
34648961 ATAAGA
66 ATAAGA
34648967 TTTGCTATCT
Statistics
Matches: 198, Mismatches: 45, Indels: 7
0.79 0.18 0.03
Matches are distributed among these distances:
85 29 0.15
86 1 0.01
88 90 0.45
89 78 0.39
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (88 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTTAATACTTCAATCTGCTCCACTACAACTTCAGGGAG
ATAAGACTTGTAGCTTCAACCTG
Found at i:34649611 original size:50 final size:50
Alignment explanation
Indices: 34648996--34650242 Score: 769
Period size: 50 Copynumber: 24.9 Consensus size: 50
34648986 ATTTGCTCTG
* * ** ** *
34648996 CTGCAATGCCAGGAAAACAAGATTCGCTATTGTAGCTTCAATCCATTT-AA
1 CTGCAATGTCAGGGAAGTAAGATTCGCCGTTGTAGCTTCAAT-CTTTTCAA
* * ** * * * *
34649046 TTGTAATGTTGGGGAGGTAAGATTCACTGTTGTAGCTTCAATCTAATT-AA
1 CTGCAATGTCAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCT-TTTCAA
* * * *
34649096 CTGCAATGT-TGGAGAAGCAAGATTCGCTGTTGTAGCTTCAATCTTTTTAA
1 CTGCAATGTCAGG-GAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAA
* * * * *
34649146 CAT-TAATGTCAGGGAAGCAAGATTCACCGTTGTAGCTTCAATCTGTTCCA
1 C-TGCAATGTCAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAA
* ** * * * * * * *
34649196 CTACACCGCCAGGGATGTAAGATTCACTGTTGTGGTTTCAATCTTTTTAA
1 CTGCAATGTCAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAA
* * * * *
34649246 TTGCAATGTC-GAGGAAGCAAAATTCGCCGTTGTAGCTTCAATCTGTTCCA
1 CTGCAATGTCAG-GGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAA
**** * * *
34649296 CTGCACCACCAGGGAAATAAGATTCGCCGTTGTGGCTTCAATCTTTTAAA
1 CTGCAATGTCAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAA
* * * * * * *
34649346 TTGCAATGTCGGGGAAGCAAAATTCACCGTTGTAGCTTCAATCTGTTCCA
1 CTGCAATGTCAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAA
* * *
34649396 CTGCACTGCCAGGGAAGTAAGATTCGCCGTTGTGGCTTCAATC-TTTCAAA
1 CTGCAATGTCAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTC-AA
* * * * * * *
34649446 TTACAATGTCGGGGAAGCAAGATTTGCCGTTGTAGCTTCAATCTGTTCCA
1 CTGCAATGTCAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAA
** * * * * * *
34649496 CTGCACCGCCAGGGAAGTAAAATTCACCATTGTGGCTTCAATCTTTTAAA
1 CTGCAATGTCAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAA
* * * * * *
34649546 TTGTAATGTCGGGGAAGCAAGATTCGCCGTTGTAGCTTCAATCTGTTCCA
1 CTGCAATGTCAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAA
** * * * * *
34649596 CTGCACCGCCAGGGAAGTAAGATTCGTCGTTGTGGCTTCCATCTTTTAAA
1 CTGCAATGTCAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAA
* * * * * * **
34649646 TTGCAATGTC-GAGAAAGCAAGATTCTCCGTTGGAGCTTCAATTTATTTTTA
1 CTGCAATGTCAG-GGAAGTAAGATTCGCCGTTGTAGCTTCAATCT-TTTCAA
** * ** * * * *
34649697 CTGCACCGCCAAAGAAGTAATATTCGCTGTTGTGGCTTCAATCTTTTAAA
1 CTGCAATGTCAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAA
* * * * * * *
34649747 TTGCAATGTCGGGGAAGCAAGATTCACCATTGTAGCTTCAATCTGTTCCA
1 CTGCAATGTCAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAA
* * * * *
34649797 CTGCACCA-CT-AGGGAAGTAAGATTCGTCGTTGTGGCTTCAATATTTTTAA
1 CTGCA--ATGTCAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAA
* * * * * * *
34649847 TTGCAATGTC-GGGAAAGCAAAATTTGCCATTGTAGCTTCAATCTGTTCCA
1 CTGCAATGTCAGGG-AAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAA
** * * * * * *
34649897 CTGCACCGCCAAGGAAGTAATATTCGCCGTTGTGGCTTAAATCTTTTAAA
1 CTGCAATGTCAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAA
* * * * * *
34649947 TTGCAATGTCGGGGAAGTAAGATTCACCATTGTAGCTTCAATCTGTTCCA
1 CTGCAATGTCAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAA
** * ** *
34649997 CTGCACCGTGAGGTTAGTAAGATTCGCCGTTGT-GACTTCAATCTTTTTAA
1 CTGCAATGTCAGGGAAGTAAGATTCGCCGTTGTAG-CTTCAATCTTTTCAA
* * * * * *
34650047 -TTCTAATGTCA-GGAATGCAAGATTCTCCATTGTAGCTTCAATCTATTCCA
1 CTGC-AATGTCAGGGAA-GTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAA
** * * * * * *
34650097 CTGCACCGCCAGGGATGTAAGATTCTCCGTTTTGGCTTCAATCTTTTAAA
1 CTGCAATGTCAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAA
* * * * * * *
34650147 TTGCAATGTCGGGGTAGCAAGATTCGCCGTTATAGCTTCAATCTGTTCTA
1 CTGCAATGTCAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAA
* * * *
34650197 CTACACCT-CCAGGGAAGTAAGATTCGCCGTTGT-GCTTCAATATTTT
1 CTGCA-ATGTCAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTT
34650243 TAATTGCATC
Statistics
Matches: 871, Mismatches: 300, Indels: 53
0.71 0.25 0.04
Matches are distributed among these distances:
48 1 0.00
49 31 0.04
50 788 0.90
51 50 0.06
52 1 0.00
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (50 bp):
CTGCAATGTCAGGGAAGTAAGATTCGCCGTTGTAGCTTCAATCTTTTCAA
Found at i:34650262 original size:100 final size:100
Alignment explanation
Indices: 34649109--34650250 Score: 1520
Period size: 100 Copynumber: 11.4 Consensus size: 100
34649099 CAATGTTGGA
* * * * *
34649109 GAAGCAAGATTCGCTGTTGTAGCTTCAATCTTTTTAACATT--AATGTCAGGGAAGCAAGATTCA
1 GAAGTAAGATTCGCCGTTGTGGCTTCAATC-TTTTAA-ATTGCAATGTCGGGGAAGCAAGATTCG
*
34649172 CCGTTGTAGCTTCAATCTGTTCCACTACACCGCCAGG
64 CCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGG
* * * * * * *
34649209 GATGTAAGATTCACTGTTGTGGTTTCAATCTTTTTAATTGCAATGTCGAGGAAGCAAAATTCGCC
1 GAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCGCC
*
34649274 GTTGTAGCTTCAATCTGTTCCACTGCACCACCAGG
66 GTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGG
* * *
34649309 GAAATAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAAATTCACC
1 GAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCGCC
*
34649374 GTTGTAGCTTCAATCTGTTCCACTGCACTGCCAGG
66 GTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGG
* * *
34649409 GAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTCAAATTACAATGTCGGGGAAGCAAGATTTGCC
1 GAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCGCC
34649474 GTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGG
66 GTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGG
* * * *
34649509 GAAGTAAAATTCACCATTGTGGCTTCAATCTTTTAAATTGTAATGTCGGGGAAGCAAGATTCGCC
1 GAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCGCC
34649574 GTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGG
66 GTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGG
* * * * *
34649609 GAAGTAAGATTCGTCGTTGTGGCTTCCATCTTTTAAATTGCAATGTCGAGAAAGCAAGATTCTCC
1 GAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCGCC
* * * ** **
34649674 GTTGGAGCTTCAATTTATTTTTACTGCACCGCCAAA
66 GTTGTAGCTTCAATCT-GTTCCACTGCACCGCCAGG
* * *
34649710 GAAGTAATATTCGCTGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCACC
1 GAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCGCC
* * *
34649775 ATTGTAGCTTCAATCTGTTCCACTGCACCACTAGG
66 GTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGG
* * * * * *
34649810 GAAGTAAGATTCGTCGTTGTGGCTTCAATATTTTTAATTGCAATGTCGGGAAAGCAAAATTTGCC
1 GAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCGCC
* *
34649875 ATTGTAGCTTCAATCTGTTCCACTGCACCGCCAAG
66 GTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGG
* * * *
34649910 GAAGTAATATTCGCCGTTGTGGCTTAAATCTTTTAAATTGCAATGTCGGGGAAGTAAGATTCACC
1 GAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCGCC
* **
34649975 ATTGTAGCTTCAATCTGTTCCACTGCACCGTGAGG
66 GTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGG
** * * * *
34650010 TTAGTAAGATTCGCCGTTGTGACTTCAATCTTTTTAATT-CTAATGTC-AGGAATGCAAGATTCT
1 GAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGC-AATGTCGGGGAA-GCAAGATTCG
* *
34650073 CCATTGTAGCTTCAATCTATTCCACTGCACCGCCAGG
64 CCGTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGG
* * * *
34650110 GATGTAAGATTCTCCGTTTTGGCTTCAATCTTTTAAATTGCAATGTCGGGGTAGCAAGATTCGCC
1 GAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCGCC
* * * *
34650175 GTTATAGCTTCAATCTGTTCTACTACACCTCCAGG
66 GTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGG
* *
34650210 GAAGTAAGATTCGCCGTTGT-GCTTCAATATTTTTAATTGCA
1 GAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCA
34650251 TCCTTAGGGG
Statistics
Matches: 908, Mismatches: 127, Indels: 15
0.86 0.12 0.01
Matches are distributed among these distances:
98 3 0.00
99 29 0.03
100 787 0.87
101 89 0.10
ACGTcount: A:0.26, C:0.21, G:0.21, T:0.32
Consensus pattern (100 bp):
GAAGTAAGATTCGCCGTTGTGGCTTCAATCTTTTAAATTGCAATGTCGGGGAAGCAAGATTCGCC
GTTGTAGCTTCAATCTGTTCCACTGCACCGCCAGG
Found at i:34656950 original size:3 final size:3
Alignment explanation
Indices: 34656942--34657006 Score: 51
Period size: 3 Copynumber: 21.7 Consensus size: 3
34656932 TAAATAAGTG
* * * * * * *
34656942 TAA TAA TAA TAC CAA TAA TAA TAA TAG TAA CAG TAC TAA TAA CAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
34656990 TAA TAAA TAA -AA TAA TA
1 TAA T-AA TAA TAA TAA TA
34657007 TTAAACTGTT
Statistics
Matches: 47, Mismatches: 13, Indels: 4
0.73 0.20 0.06
Matches are distributed among these distances:
2 2 0.04
3 42 0.89
4 3 0.06
ACGTcount: A:0.62, C:0.08, G:0.03, T:0.28
Consensus pattern (3 bp):
TAA
Found at i:34657005 original size:15 final size:16
Alignment explanation
Indices: 34656979--34657011 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
34656969 TAACAGTACT
34656979 AATAACAATAATAATA
1 AATAACAATAATAATA
*
34656995 AATAA-AATAATATTA
1 AATAACAATAATAATA
34657010 AA
1 AA
34657012 CTGTTAATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.70, C:0.03, G:0.00, T:0.27
Consensus pattern (16 bp):
AATAACAATAATAATA
Found at i:34666011 original size:46 final size:46
Alignment explanation
Indices: 34665944--34666037 Score: 179
Period size: 46 Copynumber: 2.0 Consensus size: 46
34665934 AAGAGTAAGA
*
34665944 TTAAAGTAATCAGCTTAAAAAATGGCATAATTAGTATTTCTTACAT
1 TTAAAGTAATCAGCTTAAAAAATGGCATAATTAGTATGTCTTACAT
34665990 TTAAAGTAATCAGCTTAAAAAATGGCATAATTAGTATGTCTTACAT
1 TTAAAGTAATCAGCTTAAAAAATGGCATAATTAGTATGTCTTACAT
34666036 TT
1 TT
34666038 TGCTAATCAT
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
46 47 1.00
ACGTcount: A:0.40, C:0.11, G:0.12, T:0.37
Consensus pattern (46 bp):
TTAAAGTAATCAGCTTAAAAAATGGCATAATTAGTATGTCTTACAT
Found at i:34668471 original size:35 final size:34
Alignment explanation
Indices: 34668399--34668485 Score: 140
Period size: 35 Copynumber: 2.5 Consensus size: 34
34668389 ACCATATAAC
*
34668399 AACAATTATAAATCTATGTTTGCTTCAAAAAAAA
1 AACAATTATAAATCTATATTTGCTTCAAAAAAAA
34668433 AACAATTATAAATCTATATTTG-TTCAAAAAAAAAA
1 AACAATTATAAATCTATATTTGCTTC--AAAAAAAA
34668468 AACAATTATAAATCTATA
1 AACAATTATAAATCTATA
34668486 AATCAGGAGT
Statistics
Matches: 50, Mismatches: 1, Indels: 3
0.93 0.02 0.06
Matches are distributed among these distances:
33 3 0.06
34 21 0.42
35 26 0.52
ACGTcount: A:0.54, C:0.10, G:0.03, T:0.32
Consensus pattern (34 bp):
AACAATTATAAATCTATATTTGCTTCAAAAAAAA
Found at i:34669491 original size:28 final size:28
Alignment explanation
Indices: 34669448--34669511 Score: 85
Period size: 28 Copynumber: 2.3 Consensus size: 28
34669438 CATAAAAAAT
34669448 TAAAAATTTAATAATTATTATAAAATCA
1 TAAAAATTTAATAATTATTATAAAATCA
* * *
34669476 TAAGAAATTTCA-AATTATTTTAAAATTA
1 TAA-AAATTTAATAATTATTATAAAATCA
34669504 TAAAAATT
1 TAAAAATT
34669512 ATATTTTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
27 5 0.16
28 20 0.62
29 7 0.22
ACGTcount: A:0.55, C:0.03, G:0.02, T:0.41
Consensus pattern (28 bp):
TAAAAATTTAATAATTATTATAAAATCA
Found at i:34683450 original size:63 final size:63
Alignment explanation
Indices: 34683348--34683467 Score: 177
Period size: 63 Copynumber: 1.9 Consensus size: 63
34683338 CTCCTGCCCG
* * * *
34683348 TGTGACTCCAATCTTAACTCAGTGAGTTACACGGTCTGGACATACGCCCATGTATCTTACCTA
1 TGTGACTCAAATCTTAACTCAGTAAGTTACACGGCCTGGACACACGCCCATGTATCTTACCTA
* * *
34683411 TGTGACTCAAATCTTAACTCAGTAAGTTATAGGGCCTGGACACACGCCCGTGTATCT
1 TGTGACTCAAATCTTAACTCAGTAAGTTACACGGCCTGGACACACGCCCATGTATCT
34683468 CACCCTTGTG
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
63 50 1.00
ACGTcount: A:0.26, C:0.26, G:0.19, T:0.29
Consensus pattern (63 bp):
TGTGACTCAAATCTTAACTCAGTAAGTTACACGGCCTGGACACACGCCCATGTATCTTACCTA
Found at i:34685740 original size:17 final size:18
Alignment explanation
Indices: 34685718--34685752 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
34685708 ATAGATGTAA
34685718 TTTAAAT-TCTAATTATT
1 TTTAAATGTCTAATTATT
*
34685735 TTTAAATGTGTAATTATT
1 TTTAAATGTCTAATTATT
34685753 ACAACTTCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.34, C:0.03, G:0.06, T:0.57
Consensus pattern (18 bp):
TTTAAATGTCTAATTATT
Found at i:34688174 original size:2 final size:2
Alignment explanation
Indices: 34688167--34688197 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
34688157 ACTACCAAGA
34688167 AT AT AT AT AT AT AT AT AT AT AT AT AT A- AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
34688198 CTAGTTAATT
Statistics
Matches: 28, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:34690442 original size:18 final size:18
Alignment explanation
Indices: 34690419--34690455 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
34690409 ATATAAAGAG
34690419 CGCAGACATGACAAGCAA
1 CGCAGACATGACAAGCAA
34690437 CGCAGACATGACAAGCAA
1 CGCAGACATGACAAGCAA
34690455 C
1 C
34690456 AAGAGTAGGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.43, C:0.30, G:0.22, T:0.05
Consensus pattern (18 bp):
CGCAGACATGACAAGCAA
Found at i:34696267 original size:13 final size:13
Alignment explanation
Indices: 34696249--34696274 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
34696239 TCTAAATCAG
34696249 AATTATTTTTGAA
1 AATTATTTTTGAA
34696262 AATTATTTTTGAA
1 AATTATTTTTGAA
34696275 CCCAAAAGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.00, G:0.08, T:0.54
Consensus pattern (13 bp):
AATTATTTTTGAA
Found at i:34698455 original size:91 final size:91
Alignment explanation
Indices: 34698248--34698436 Score: 272
Period size: 91 Copynumber: 2.1 Consensus size: 91
34698238 NNNAGAACAT
* *
34698248 TTTATTATTAAGAATTTTATGAAATTATATATCACTATTAAATTATATTTAATATTAATTATTTT
1 TTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTATATGTAATATTAATTATTTT
* * *
34698313 AAATTGTATAAATTCATATAAGAAAA
66 AAATTATACAAATTCATAAAAGAAAA
* * *
34698339 TTTATTATCAAGAATTTTATGAAATTATATATTATTATTAAATTATATGTAATAATT-ATTGTTT
1 TTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTATATGTAAT-ATTAATTATTT
* *
34698403 TAAATTATACAAATTCATAAAATATAA
65 TAAATTATACAAATTCATAAAAGAAAA
34698430 TTTATTA
1 TTTATTA
34698437 GTTATAATTA
Statistics
Matches: 87, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
91 84 0.97
92 3 0.03
ACGTcount: A:0.44, C:0.03, G:0.04, T:0.48
Consensus pattern (91 bp):
TTTATTATCAAGAATTTTATGAAATTATATATCACTATTAAATTATATGTAATATTAATTATTTT
AAATTATACAAATTCATAAAAGAAAA
Found at i:34698612 original size:15 final size:15
Alignment explanation
Indices: 34698577--34698628 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
34698567 TTAAGAATTT
*
34698577 TATTAAATTAT-ATA
1 TATTTAATTATAATA
34698591 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
34698605 TATTTAATAATAAT-
1 TATTTAATTATAATA
34698619 TATGTTAATT
1 TAT-TTAATT
34698629 TATATTTTAC
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 8 0.25
14 8 0.25
15 16 0.50
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.54
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:34698719 original size:115 final size:117
Alignment explanation
Indices: 34698452--34698744 Score: 459
Period size: 120 Copynumber: 2.5 Consensus size: 117
34698442 AATTATTTTA
* * * *
34698452 AATTTTATTAAATCATATATTTTAATTAAAATATATTTAATATTAATTAT-TTCAAATTTTCTTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AAATTTTATTT
*
34698516 TATAGTATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAG
65 TACAGTATCATATATTATGATTTGAGT-AA-T-ATATAAGAATATTAATTATTAAG
34698572 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTT-AATTTATATTT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTT-TATTT
34698636 TACAGTATCATATATTATGATTTGAGT-A-ATATAAGAATATTAATTATTAAG
65 TACAGTATCATATATTATGATTTGAGTAATATATAAGAATATTAATTATTAAG
34698687 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTAAAT
1 AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATG-TTAAAT
34698745 ATGATTAAAT
Statistics
Matches: 164, Mismatches: 5, Indels: 11
0.91 0.03 0.06
Matches are distributed among these distances:
115 74 0.45
116 2 0.01
117 3 0.02
118 1 0.01
119 5 0.03
120 77 0.47
121 2 0.01
ACGTcount: A:0.43, C:0.02, G:0.05, T:0.50
Consensus pattern (117 bp):
AATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTAAATTTTATTTT
ACAGTATCATATATTATGATTTGAGTAATATATAAGAATATTAATTATTAAG
Found at i:34698722 original size:16 final size:16
Alignment explanation
Indices: 34698701--34698742 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
34698691 TTATTAAATT
*
34698701 ATATATTTTAATTATA
1 ATATATTTTAATAATA
34698717 ATATA-TTTAATAATA
1 ATATATTTTAATAATA
34698732 AT-TATGTTTAA
1 ATATAT-TTTAA
34698743 ATATGATTAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 2 0.09
15 11 0.48
16 10 0.43
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
ATATATTTTAATAATA
Found at i:34698727 original size:15 final size:15
Alignment explanation
Indices: 34698692--34698733 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
34698682 TTAAGAATTT
*
34698692 TATTAAATTAT-ATA
1 TATTTAATTATAATA
34698706 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
34698720 TATTTAATAATAAT
1 TATTTAATTATAAT
34698734 TATGTTTAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:34698873 original size:18 final size:17
Alignment explanation
Indices: 34698845--34698879 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
34698835 ATTATTAAGA
*
34698845 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
34698862 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
34698880 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:34698881 original size:157 final size:157
Alignment explanation
Indices: 34698676--34698992 Score: 589
Period size: 157 Copynumber: 2.0 Consensus size: 157
34698666 ATAAGAATAT
*
34698676 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
*
34698741 AAATATGATTAAATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
34698806 TAATAATTTACCAAAACAAATTTCTGC
131 TAATAATTTACCAAAACAAATTTATGC
34698833 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
*
34698898 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAGTTTAAATAACAATAACAA
66 AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
*
34698963 TAATCATTTACCAAAACAAATTTATGC
131 TAATAATTTACCAAAACAAATTTATGC
34698990 TAA
1 TAA
34698993 GGGTATTCTA
Statistics
Matches: 155, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
157 155 1.00
ACGTcount: A:0.47, C:0.05, G:0.03, T:0.44
Consensus pattern (157 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATAATAATCTTATTAAAATTTAAATAACAATAACAA
TAATAATTTACCAAAACAAATTTATGC
Found at i:34698913 original size:75 final size:75
Alignment explanation
Indices: 34698677--34698915 Score: 191
Period size: 75 Copynumber: 3.1 Consensus size: 75
34698667 TAAGAATATT
*
34698677 AATTATTAAGAATTTTATTAAATTATATATTTTAATTATAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
34698742 AATATGATTA
66 AATATGATTA
* ** * * * * *
34698752 AATTATTTATTATTGATATTAATAATCTTATTAAAATTTAAATAACAATA-A--CAATAATAATT
1 AATTATTAAGAATT-TTATT-A-AA--TTA-TATATTTTAATTAA-AATATATTTAATAATAATT
**** * * *
34698814 -TACCAAAACAAAT-TTCTGCT
59 AT-GTTTAA-ATATGAT-T--A
34698834 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
1 AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
34698899 AATATGATTA
66 AATATGATTA
34698909 AATTATT
1 AATTATT
34698916 TATTATTGAT
Statistics
Matches: 116, Mismatches: 31, Indels: 34
0.64 0.17 0.19
Matches are distributed among these distances:
75 22 0.19
76 16 0.14
77 8 0.07
78 16 0.14
79 16 0.14
80 8 0.07
81 15 0.13
82 15 0.13
ACGTcount: A:0.46, C:0.03, G:0.03, T:0.47
Consensus pattern (75 bp):
AATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATAATTATGTTTA
AATATGATTA
Found at i:34699093 original size:16 final size:16
Alignment explanation
Indices: 34699068--34699121 Score: 81
Period size: 16 Copynumber: 3.4 Consensus size: 16
34699058 CAAGATTACT
*
34699068 ATTACGCCTCTATTCC
1 ATTACACCTCTATTCC
34699084 ATTACACCTCTATTCC
1 ATTACACCTCTATTCC
*
34699100 ATTACACCTCTAATCC
1 ATTACACCTCTATTCC
*
34699116 AATACA
1 ATTACA
34699122 GCGAACCAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 35 1.00
ACGTcount: A:0.30, C:0.35, G:0.02, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTATTCC
Found at i:34699598 original size:19 final size:19
Alignment explanation
Indices: 34699525--34699601 Score: 55
Period size: 19 Copynumber: 3.7 Consensus size: 19
34699515 AGCTACATCG
34699525 TTTATAATTTATTTTGTTTAA
1 TTTATAATTTATTTT-TTT-A
*
34699546 TATTAGTATATTTATTTTTAATA
1 T-TTA-TA-ATTTATTTTT-TTA
** **
34699569 CATATGTTTTATTTTTTTA
1 TTTATAATTTATTTTTTTA
34699588 TTTATAATTTATTT
1 TTTATAATTTATTT
34699602 ATGCTTTCTA
Statistics
Matches: 42, Mismatches: 10, Indels: 10
0.68 0.16 0.16
Matches are distributed among these distances:
19 12 0.29
20 9 0.21
21 2 0.05
22 5 0.12
23 4 0.10
24 10 0.24
ACGTcount: A:0.29, C:0.01, G:0.04, T:0.66
Consensus pattern (19 bp):
TTTATAATTTATTTTTTTA
Found at i:34701588 original size:4 final size:4
Alignment explanation
Indices: 34701579--34701762 Score: 350
Period size: 4 Copynumber: 46.0 Consensus size: 4
34701569 TTGAAGAATT
34701579 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
*
34701627 TGCA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
34701675 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
*
34701723 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TCTA TGTA
1 TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA TGTA
34701763 GATATGTCCA
Statistics
Matches: 176, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
4 176 1.00
ACGTcount: A:0.25, C:0.01, G:0.24, T:0.49
Consensus pattern (4 bp):
TGTA
Found at i:34702348 original size:327 final size:327
Alignment explanation
Indices: 34701754--34702968 Score: 2139
Period size: 327 Copynumber: 3.7 Consensus size: 327
34701744 GTATGTATGT
*
34701754 ATCTATGTAGATATGTCCATTATGTTATTTGAGTGATGCATGACTAAGTATGGTTGGTGATAATG
1 ATCTATGTAGATATGTCCATTATGTTATTTGAGTGATGCATGACTAAGTATGGTTGGTGATAAGG
* *
34701819 GGGTTCAGGCGGAGTGTCGAGAAAGTATGTGATATAATGACAGACCCCATGGTGGTGCTTTGATG
66 GGGTTCAGGCGGAGTGTCGAGAAAGTATGTGATACAATGACAGACCCCACGGTGGTGCTTTGATG
* * *
34701884 ACTTCCGATAGGACAGTAAACATGAAGTCCAGTATGGTGAAATGTAGTCCATCGGGACAATAAAC
131 ACGTCCGCTAGGACAGTAAACATGAAGTCCAGTATGGTGAAATGTAGTCCATCGGGACCATAAAC
*
34701949 ACGAGAATCGCTGAGATAGTAAAAATGAGAAAGGCTAATGTGCGATGCACTGCATGAATATGATG
196 ACGAGAATCACTGAGATAGTAAAAATGAGAAAGGCTAATGTGCGATGCACTGCATGAATATGATG
*
34702014 ATGTGTGGTAAACATGCATGGGAAATTATGTGTTAGGAAGTATAATTCTATTAATATTATAAGCA
261 ATGTGTGGTAAACATGCATGGGAAATTATGTGTTAGGAAGTATAATTCTATTAAGATTATAAGCA
34702079 AA
326 AA
*
34702081 ATCTATGTAGATATGTCCATTATGTTATTTGAGTGATGCATGACTAAGTATGGTCGGTGATAAGG
1 ATCTATGTAGATATGTCCATTATGTTATTTGAGTGATGCATGACTAAGTATGGTTGGTGATAAGG
* *
34702146 GGGTTCAGGCGGAGTGCCGAGAAAGTATGTGATACAATGACAGACCCCATGGTGGTGCTTTGATG
66 GGGTTCAGGCGGAGTGTCGAGAAAGTATGTGATACAATGACAGACCCCACGGTGGTGCTTTGATG
* *
34702211 ACTTCCGCTAGGACAGTAAACATGAAGTCCAGTATGGTCAAATGTAGTCCATCGGGACCATAAAC
131 ACGTCCGCTAGGACAGTAAACATGAAGTCCAGTATGGTGAAATGTAGTCCATCGGGACCATAAAC
34702276 ACGAGAATCACTGAGATAGTAAAAATGAGAAAGGCTAATGTGCGATGCACTGCATGAATATGATG
196 ACGAGAATCACTGAGATAGTAAAAATGAGAAAGGCTAATGTGCGATGCACTGCATGAATATGATG
34702341 ATGTGTGGTAAACATGCATGGGAAATTATGTGTTAGGAAGTATAATTCTATTAAGATTATAAGCA
261 ATGTGTGGTAAACATGCATGGGAAATTATGTGTTAGGAAGTATAATTCTATTAAGATTATAAGCA
34702406 AA
326 AA
34702408 ATCTATGTAGATATGTCCATTATGTTATTTGAGTGATGCATGACTAAGTATGGTTGGTGATAAGG
1 ATCTATGTAGATATGTCCATTATGTTATTTGAGTGATGCATGACTAAGTATGGTTGGTGATAAGG
* * *
34702473 GGGTTCAGGCGGAGTGTCGAGAAAGTATGTGATACAATGACGGACCCCGCGGTGGTGCTTTAATG
66 GGGTTCAGGCGGAGTGTCGAGAAAGTATGTGATACAATGACAGACCCCACGGTGGTGCTTTGATG
* * *
34702538 ACGTCTGCTAGGACATTAAACATGAAGTCCGGTATGGTGAAATGTAGTCCATCGGGACCATAAAC
131 ACGTCCGCTAGGACAGTAAACATGAAGTCCAGTATGGTGAAATGTAGTCCATCGGGACCATAAAC
* * *
34702603 ACAAGAATCACTGAGATAGTAAAAATGAGAAAGGCTAATGTGTGATGCACTGCATGAATATGACG
196 ACGAGAATCACTGAGATAGTAAAAATGAGAAAGGCTAATGTGCGATGCACTGCATGAATATGATG
*
34702668 ATGTGTGGTAAACATGCATGGGAAATTATGTGTTAGAAAGTATAATTCTATTAAGATTATAAGCA
261 ATGTGTGGTAAACATGCATGGGAAATTATGTGTTAGGAAGTATAATTCTATTAAGATTATAAGCA
34702733 AA
326 AA
*
34702735 ATCTATATAGATATGTCCATTATGTTATTTGAGTGATGCATGACTAAGTATGGTTGGTGATAAGG
1 ATCTATGTAGATATGTCCATTATGTTATTTGAGTGATGCATGACTAAGTATGGTTGGTGATAAGG
* * * * *
34702800 GGGTTCAGGCAGAGTGTCGAGAAAGTAT-TG-TA-TATGACGGACCCCGCGGTGGTGCTTTGATA
66 GGGTTCAGGCGGAGTGTCGAGAAAGTATGTGATACAATGACAGACCCCACGGTGGTGCTTTGATG
34702862 ACGTCCGCTAGGACAGTAAACATGAAGTCCAGTATGGTGAAATGTAGTCCATCGGGACCATAAAC
131 ACGTCCGCTAGGACAGTAAACATGAAGTCCAGTATGGTGAAATGTAGTCCATCGGGACCATAAAC
*
34702927 ACGAGAATCGCTGAGATAGTAAAAATGAGAAAGGCTAATGTG
196 ACGAGAATCACTGAGATAGTAAAAATGAGAAAGGCTAATGTG
34702969 ACAGATATGT
Statistics
Matches: 854, Mismatches: 34, Indels: 3
0.96 0.04 0.00
Matches are distributed among these distances:
324 129 0.15
325 2 0.00
326 2 0.00
327 721 0.84
ACGTcount: A:0.33, C:0.13, G:0.27, T:0.28
Consensus pattern (327 bp):
ATCTATGTAGATATGTCCATTATGTTATTTGAGTGATGCATGACTAAGTATGGTTGGTGATAAGG
GGGTTCAGGCGGAGTGTCGAGAAAGTATGTGATACAATGACAGACCCCACGGTGGTGCTTTGATG
ACGTCCGCTAGGACAGTAAACATGAAGTCCAGTATGGTGAAATGTAGTCCATCGGGACCATAAAC
ACGAGAATCACTGAGATAGTAAAAATGAGAAAGGCTAATGTGCGATGCACTGCATGAATATGATG
ATGTGTGGTAAACATGCATGGGAAATTATGTGTTAGGAAGTATAATTCTATTAAGATTATAAGCA
AA
Found at i:34703177 original size:25 final size:25
Alignment explanation
Indices: 34703149--34703207 Score: 91
Period size: 25 Copynumber: 2.4 Consensus size: 25
34703139 TTCAATTGGG
* * *
34703149 AAGCCTTTGTGGCGAGTCACCTTTA
1 AAGCCTTTATGGCGACTCACCTGTA
34703174 AAGCCTTTATGGCGACTCACCTGTA
1 AAGCCTTTATGGCGACTCACCTGTA
34703199 AAGCCTTTA
1 AAGCCTTTA
34703208 AAACACCCTT
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 31 1.00
ACGTcount: A:0.24, C:0.25, G:0.20, T:0.31
Consensus pattern (25 bp):
AAGCCTTTATGGCGACTCACCTGTA
Found at i:34704556 original size:25 final size:24
Alignment explanation
Indices: 34704522--34704631 Score: 112
Period size: 25 Copynumber: 4.4 Consensus size: 24
34704512 GTCGTTACAA
*
34704522 CCTTTGTGGCAAGTTACCTATAAAG
1 CCTTTGTGGCAA-TCACCTATAAAG
* *
34704547 CCTTTATGGCGAATCACCTGTAAAG
1 CCTTTGTGGC-AATCACCTATAAAG
*
34704572 CCTTTGTGGTGAATCACCTATAAAG
1 CCTTTGTGG-CAATCACCTATAAAG
* * * *
34704597 CCTTTGTGGTGAGTCACCTTTAAAT
1 CCTTTGTGG-CAATCACCTATAAAG
34704622 CCTTTGTGGC
1 CCTTTGTGGC
34704632 GATTCATTTG
Statistics
Matches: 73, Mismatches: 10, Indels: 5
0.83 0.11 0.06
Matches are distributed among these distances:
25 71 0.97
26 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.21, T:0.34
Consensus pattern (24 bp):
CCTTTGTGGCAATCACCTATAAAG
Found at i:34704647 original size:50 final size:50
Alignment explanation
Indices: 34704522--34704660 Score: 127
Period size: 50 Copynumber: 2.8 Consensus size: 50
34704512 GTCGTTACAA
* * * *
34704522 CCTTTGTGGC-AAGTTACCTATAAAGCCTTTATGGCGAATCACCTGTAAAG
1 CCTTTGTGGCGAA-TCACCTAGAAAGCCTTTGTGGTGAATCACCTGTAAAG
* * * * *
34704572 CCTTTGTGGTGAATCACCTATAAAGCCTTTGTGGTGAGTCACCTTTAAAT
1 CCTTTGTGGCGAATCACCTAGAAAGCCTTTGTGGTGAATCACCTGTAAAG
* ** * **
34704622 CCTTTGTGGCGATTCATTTGGAAAGCCTAAGTGGTGAAT
1 CCTTTGTGGCGAATCACCTAGAAAGCCTTTGTGGTGAAT
34704661 TGTTAGTCTG
Statistics
Matches: 72, Mismatches: 16, Indels: 2
0.80 0.18 0.02
Matches are distributed among these distances:
50 70 0.97
51 2 0.03
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.33
Consensus pattern (50 bp):
CCTTTGTGGCGAATCACCTAGAAAGCCTTTGTGGTGAATCACCTGTAAAG
Found at i:34704647 original size:75 final size:75
Alignment explanation
Indices: 34704522--34704660 Score: 170
Period size: 75 Copynumber: 1.9 Consensus size: 75
34704512 GTCGTTACAA
* * **
34704522 CCTTTGTGGCAAGTTACCTATAAAGCCTTTATGGCGAATCACCTGTAAAGCCTTTGTGGTGAATC
1 CCTTTGTGGCAAGTCACCTATAAAGCCTTTATGGCGAATCACCTGGAAAGCCTAAGTGGTGAATC
34704587 ACCTATAAAG
66 ACCTATAAAG
** * * * * **
34704597 CCTTTGTGGTGAGTCACCTTTAAATCCTTTGTGGCGATTCATTTGGAAAGCCTAAGTGGTGAAT
1 CCTTTGTGGCAAGTCACCTATAAAGCCTTTATGGCGAATCACCTGGAAAGCCTAAGTGGTGAAT
34704661 TGTTAGTCTG
Statistics
Matches: 52, Mismatches: 12, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
75 52 1.00
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.33
Consensus pattern (75 bp):
CCTTTGTGGCAAGTCACCTATAAAGCCTTTATGGCGAATCACCTGGAAAGCCTAAGTGGTGAATC
ACCTATAAAG
Found at i:34706416 original size:45 final size:45
Alignment explanation
Indices: 34706310--34706557 Score: 148
Period size: 45 Copynumber: 5.5 Consensus size: 45
34706300 GTGGTGCCAC
* * **
34706310 AGTATCTTTCAACTATGGTCTTGATT--TTTAGCCCGATGTATTGCCAT
1 AGTATCTTTCAACTATGGTCTT-ATTCATTT---CCGATATAATATCAT
* *
34706357 AGTATCTGTCAACTATGGTCTTATTCATTTCGGA-ATTAATATCAT
1 AGTATCTTTCAACTATGGTCTTATTCATTTCCGATA-TAATATCAT
* * * * *
34706402 AGTATCTTTTAACTATGGTCTTTTTTATTTCCGATATAGTGTCAT
1 AGTATCTTTCAACTATGGTCTTATTCATTTCCGATATAATATCAT
* * * * * *
34706447 AATATCTTTCAACTATGGTATTA-T-ATATTCCGGTTTGATACCAT
1 AGTATCTTTCAACTATGGTCTTATTCAT-TTCCGATATAATATCAT
* * * * * * * **
34706491 GGTGTTTTTCAACTATGATCTT-TCTCGTTTCGGGTATAATGCCAT
1 AGTATCTTTCAACTATGGTCTTAT-TCATTTCCGATATAATATCAT
*
34706536 AGTATCTTTCAACCATGGTCTT
1 AGTATCTTTCAACTATGGTCTT
34706558 TCTCGTTTCT
Statistics
Matches: 154, Mismatches: 39, Indels: 18
0.73 0.18 0.09
Matches are distributed among these distances:
43 2 0.01
44 28 0.18
45 95 0.62
46 5 0.03
47 21 0.14
48 3 0.02
ACGTcount: A:0.24, C:0.17, G:0.15, T:0.44
Consensus pattern (45 bp):
AGTATCTTTCAACTATGGTCTTATTCATTTCCGATATAATATCAT
Found at i:34706542 original size:89 final size:90
Alignment explanation
Indices: 34706342--34706554 Score: 207
Period size: 89 Copynumber: 2.4 Consensus size: 90
34706332 GATTTTTAGC
* * * * * *
34706342 CCGATGTATTGCCATAGTATCTGTCAACTATGGTCTTATTCATTTCGGAATTAATATCATAGTAT
1 CCGATATAATGCCATAGTATCTTTCAACTATGGTATTATTCATTCCGGAATTAATACCATAGTAT
* * *
34706407 CTTTTAACTATGGTCTTTTTTATTT
66 CTTTTAACTATGATCTTTCTCATTT
* * * * * * *
34706432 CCGATATAGTGTCATAATATCTTTCAACTATGGTATTATAT-ATTCCGG-TTTGATACCATGGTG
1 CCGATATAATGCCATAGTATCTTTCAACTATGGTATTAT-TCATTCCGGAATTAATACCATAGTA
*
34706495 T-TTTTCAACTATGATCTTTCTCGTTT
65 TCTTTT-AACTATGATCTTTCTCATTT
* * *
34706521 CGGGTATAATGCCATAGTATCTTTCAACCATGGT
1 CCGATATAATGCCATAGTATCTTTCAACTATGGT
34706555 CTTTCTCGTT
Statistics
Matches: 99, Mismatches: 22, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
88 4 0.04
89 55 0.56
90 39 0.39
91 1 0.01
ACGTcount: A:0.24, C:0.17, G:0.15, T:0.44
Consensus pattern (90 bp):
CCGATATAATGCCATAGTATCTTTCAACTATGGTATTATTCATTCCGGAATTAATACCATAGTAT
CTTTTAACTATGATCTTTCTCATTT
Found at i:34719094 original size:3 final size:3
Alignment explanation
Indices: 34719086--34719152 Score: 107
Period size: 3 Copynumber: 22.3 Consensus size: 3
34719076 TAAATGAGTA
** *
34719086 AAT AAT AAT AGC AAT CAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
34719134 AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT A
34719153 TTTTGAAAGT
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
3 58 1.00
ACGTcount: A:0.64, C:0.03, G:0.01, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:34720099 original size:213 final size:214
Alignment explanation
Indices: 34719726--34720153 Score: 770
Period size: 213 Copynumber: 2.0 Consensus size: 214
34719716 GCGGGTTGAG
*
34719726 CATGAAACGACGTCGTTTTGGCGCCTGGGTTCCTAACCCAAAACGGCGCCGTTTTGCTTCCTTAT
1 CATGAAACGACGTCGTTTTGGCGCCTGGGTTCCTAACCCAAAACGGCGCCATTTTGCTTCCTTAT
34719791 TTAAATCTATTTTTTTTCTAAAATTTTCATTTTACCAGTGCTTTAAAAAAAATTCAAAACCTCTC
66 TTAAATCTATTTTTTTTCTAAAATTTTCATTTTACCAGTGCTTTAAAAAAAATTCAAAACCTCTC
34719856 ATCTCTCTCAAAAAGCTCTCTCCCATCCGGCCATGGG-CACCACCATGGCTCCACCGCAGCCACC
131 ATCTCTCTCAAAAAGCTCTCTCCCATCCGGCCATGGGACACCACCATGGCTCCACCGCAGCCACC
*
34719920 GAACGCCGGCGTCCTCGAC
196 GAACACCGGCGTCCTCGAC
*
34719939 CATGAGACGACGTCGTTTTGGCGCCTGGGTTCCTAACCCAAAACGGCGCCATTTTGCTTCCTTAT
1 CATGAAACGACGTCGTTTTGGCGCCTGGGTTCCTAACCCAAAACGGCGCCATTTTGCTTCCTTAT
*
34720004 TTAAATCTA-TTTTTTTCTAAAATTTTCATTTTACCAGTGTTTTAAAAAAAAATTCAAAACCTCT
66 TTAAATCTATTTTTTTTCTAAAATTTTCATTTTACCAGTGCTTT-AAAAAAAATTCAAAACCTCT
*
34720068 CATCTCTCTCAAAAAGCTCTCTCCCATCCGGCCATGGGACACCACCATGGCTCCATCGCAGCCAC
130 CATCTCTCTCAAAAAGCTCTCTCCCATCCGGCCATGGGACACCACCATGGCTCCACCGCAGCCAC
* *
34720133 TGAACACCGGCGTCGTCGAC
195 CGAACACCGGCGTCCTCGAC
34720153 C
1 C
34720154 TCTGCACGCG
Statistics
Matches: 206, Mismatches: 7, Indels: 3
0.95 0.03 0.01
Matches are distributed among these distances:
212 33 0.16
213 130 0.63
214 43 0.21
ACGTcount: A:0.25, C:0.31, G:0.15, T:0.29
Consensus pattern (214 bp):
CATGAAACGACGTCGTTTTGGCGCCTGGGTTCCTAACCCAAAACGGCGCCATTTTGCTTCCTTAT
TTAAATCTATTTTTTTTCTAAAATTTTCATTTTACCAGTGCTTTAAAAAAAATTCAAAACCTCTC
ATCTCTCTCAAAAAGCTCTCTCCCATCCGGCCATGGGACACCACCATGGCTCCACCGCAGCCACC
GAACACCGGCGTCCTCGAC
Found at i:34721240 original size:132 final size:132
Alignment explanation
Indices: 34721088--34721458 Score: 575
Period size: 132 Copynumber: 2.8 Consensus size: 132
34721078 TAACTTCCCT
* * * *
34721088 ACTACCTTGGGAAGATAAGATTCACCATCTTTGATCTGTTCCACTACTGCTTAGGGAGACAAAAT
1 ACTATCTTGAGAAGATAAGATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGTGACAAAAT
* * *
34721153 TTGCAATCTTCAACCTACTCCACTGCTACTCAGGGAGATAGGGCTAATGGTTTAAATCTGCTTCT
66 TTGCAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAGGGCTAATGGCTTAAATCTGCTTCT
34721218 CC
131 CC
* *
34721220 ACTATCTTGAGAAGATAAGATTCACCATCTTCT-ATCTGCTCCACTATTGCTTAGGGTGAGAAAA
1 ACTATCTTGAGAAGATAAGATTCACCATCTT-TGATCTGCTCCACTACTGCTTAGGGTGACAAAA
*
34721284 TTTGCAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAGGGTTAATGGCTTAAATCTGCTTC
65 TTTGCAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAGGGCTAATGGCTTAAATCTGCTTC
34721349 TCC
130 TCC
* * *
34721352 ACTATCTTGAGAAGATAAGGTTCACCA-CATTCGATCTGCTCCACTACTGCTTAGGGTGACAGAA
1 ACTATCTTGAGAAGATAAGATTCACCATC-TTTGATCTGCTCCACTACTGCTTAGGGTGACAAAA
* *
34721416 TATGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGG
65 TTTGCAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAGG
34721459 ATCTTTAATC
Statistics
Matches: 219, Mismatches: 17, Indels: 6
0.90 0.07 0.02
Matches are distributed among these distances:
131 1 0.00
132 217 0.99
133 1 0.00
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (132 bp):
ACTATCTTGAGAAGATAAGATTCACCATCTTTGATCTGCTCCACTACTGCTTAGGGTGACAAAAT
TTGCAATCTTCAACCTACTCCACTACTGCTCAGGGAGATAGGGCTAATGGCTTAAATCTGCTTCT
CC
Found at i:34721469 original size:44 final size:44
Alignment explanation
Indices: 34721390--34721635 Score: 148
Period size: 44 Copynumber: 5.6 Consensus size: 44
34721380 ATTCGATCTG
* * *
34721390 CTCCACTACTGCTTAGGGTGACAGAATATGCAATCTTCAACCTA
1 CTCCACTACTGCTTAGGGAGATAGGATATGCAATCTTCAACCTA
* ** *
34721434 CTCCACTACTGCTTAGGGAGATAGGATCTTTAATCTTTAACCTA
1 CTCCACTACTGCTTAGGGAGATAGGATATGCAATCTTCAACCTA
* * * * *
34721478 CTCCACTACTGTTTAAGGAGATAGGACTAATG---GCTTAAATCTGCTT
1 CTCCACTACTGCTTAGGGAGATAGGA-T-ATGCAATCTTCAA-C--CTA
* * * *
34721524 CTCCACTA-T-CTT-GGGAAGATAAGAT-T-CACCATCTTCGATCTG
1 CTCCACTACTGCTTAGGG-AGATAGGATATGCA--ATCTTCAACCTA
* * * * * * *
34721566 CTCCACTACTGCCTAAGGTGACAGAATCTGCAATCTTTAACCTA
1 CTCCACTACTGCTTAGGGAGATAGGATATGCAATCTTCAACCTA
*
34721610 CTCCATTACTGCTTAGGGAGATAGGA
1 CTCCACTACTGCTTAGGGAGATAGGA
34721636 CTAGTGGCTT
Statistics
Matches: 148, Mismatches: 38, Indels: 32
0.68 0.17 0.15
Matches are distributed among these distances:
41 1 0.01
42 10 0.07
43 9 0.06
44 106 0.72
45 9 0.06
46 13 0.09
ACGTcount: A:0.28, C:0.24, G:0.17, T:0.30
Consensus pattern (44 bp):
CTCCACTACTGCTTAGGGAGATAGGATATGCAATCTTCAACCTA
Found at i:34721558 original size:88 final size:88
Alignment explanation
Indices: 34721290--34721577 Score: 234
Period size: 88 Copynumber: 3.3 Consensus size: 88
34721280 AAAATTTGCA
* **
34721290 ATCTTCAACCTACTCCACTACTGCTCAGGGAGATAGGGTTAATGGCTTAAATCTGCTTCTCCACT
1 ATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGAATAATGGCTTAAATCTGCTTCTCCACT
* *
34721355 ATCTTGAGAAGATAAGGTTCACC
66 ATCTTGGGAAGATAAGATTCACC
* * * * * * * *
34721378 A-CATTCGATCTGCTCCACTACTGCTTAGGGTGACA-GAAT-ATGCAATCTTCAA-C--CTACTC
1 ATC-TTCAACCTACTCCACTACTGCTTAGGGAGATAGGAATAATG---GCTTAAATCTGCTTCTC
* *
34721437 CACTACTGCTTAGGG-AGATAGGATCTTTA--
62 CACTA-T-CTT-GGGAAGATAAGA--TTCACC
* * * *
34721466 ATCTTTAACCTACTCCACTACTGTTTAAGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCACT
1 ATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGAATAATGGCTTAAATCTGCTTCTCCACT
34721531 ATCTTGGGAAGATAAGATTCACC
66 ATCTTGGGAAGATAAGATTCACC
* * *
34721554 ATCTTCGATCTGCTCCACTACTGC
1 ATCTTCAACCTACTCCACTACTGC
34721578 CTAAGGTGAC
Statistics
Matches: 148, Mismatches: 34, Indels: 36
0.68 0.16 0.17
Matches are distributed among these distances:
86 16 0.11
87 12 0.08
88 92 0.62
89 12 0.08
90 16 0.11
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (88 bp):
ATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGAATAATGGCTTAAATCTGCTTCTCCACT
ATCTTGGGAAGATAAGATTCACC
Found at i:34721558 original size:132 final size:132
Alignment explanation
Indices: 34721434--34721717 Score: 444
Period size: 132 Copynumber: 2.2 Consensus size: 132
34721424 CTTCAACCTA
* * ** *
34721434 CTCCACTACTGCTTAGGGAGATAGGATCTTTAATCTTTAACCTACTCCACTACTGTTTAAGGAGA
1 CTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTTAACCTACTCCACTACTGCTTAAGGAGA
*
34721499 TAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCACCATCTTCGATC
66 TAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGAGAAGATAAGATTCACCATCTTCGATC
34721564 TG
131 TG
* * * * *
34721566 CTCCACTACTGCCTAAGGTGACAGAATCTGCAATCTTTAACCTACTCCATTACTGCTTAGGGAGA
1 CTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTTAACCTACTCCACTACTGCTTAAGGAGA
* *
34721631 TAGGACTAGTGGCTTAAATCTGCTTCTCCACTATCTTGAGAAGATAAGATTCACCACCTTCGATC
66 TAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGAGAAGATAAGATTCACCATCTTCGATC
34721696 TG
131 TG
34721698 CTCCACTACTGCTT-GGGAGA
1 CTCCACTACTGCTTAGGGAGA
34721718 GTAAGATTCG
Statistics
Matches: 136, Mismatches: 16, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
131 4 0.03
132 132 0.97
ACGTcount: A:0.27, C:0.25, G:0.18, T:0.31
Consensus pattern (132 bp):
CTCCACTACTGCTTAGGGAGACAGAATCTGCAATCTTTAACCTACTCCACTACTGCTTAAGGAGA
TAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGAGAAGATAAGATTCACCATCTTCGATC
TG
Found at i:34721631 original size:176 final size:176
Alignment explanation
Indices: 34721289--34721635 Score: 561
Period size: 176 Copynumber: 2.0 Consensus size: 176
34721279 GAAAATTTGC
* **
34721289 AATCTTCAACCTACTCCACTACTGCTCAGGGAGATAGGGTTAATGGCTTAAATCTGCTTCTCCAC
1 AATCTTCAACCTACTCCACTACTGCTCAAGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCAC
* * *
34721354 TATCTTGAGAAGATAAGGTTCACCACATTCGATCTGCTCCACTACTGCTTAGGGTGACAGAATAT
66 TATCTTGAGAAGATAAGATTCACCACATTCGATCTGCTCCACTACTGCCTAAGGTGACAGAATAT
34721419 GCAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGATCTTT
131 GCAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGATCTTT
* * *
34721465 AATCTTTAACCTACTCCACTACTGTTTAAGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCAC
1 AATCTTCAACCTACTCCACTACTGCTCAAGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCAC
* *
34721530 TATCTTGGGAAGATAAGATTCACCATC-TTCGATCTGCTCCACTACTGCCTAAGGTGACAGAATC
66 TATCTTGAGAAGATAAGATTCACCA-CATTCGATCTGCTCCACTACTGCCTAAGGTGACAGAATA
* *
34721594 TGCAATCTTTAACCTACTCCATTACTGCTTAGGGAGATAGGA
130 TGCAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGA
34721636 CTAGTGGCTT
Statistics
Matches: 157, Mismatches: 13, Indels: 2
0.91 0.08 0.01
Matches are distributed among these distances:
176 156 0.99
177 1 0.01
ACGTcount: A:0.28, C:0.24, G:0.18, T:0.30
Consensus pattern (176 bp):
AATCTTCAACCTACTCCACTACTGCTCAAGGAGATAGGACTAATGGCTTAAATCTGCTTCTCCAC
TATCTTGAGAAGATAAGATTCACCACATTCGATCTGCTCCACTACTGCCTAAGGTGACAGAATAT
GCAATCTTCAACCTACTCCACTACTGCTTAGGGAGATAGGATCTTT
Found at i:34721686 original size:308 final size:308
Alignment explanation
Indices: 34721127--34721711 Score: 902
Period size: 308 Copynumber: 1.9 Consensus size: 308
34721117 TTTGATCTGT
* *
34721127 TCCACTACTGCTTAGGGAGACAAAATTTGCAATCTTCAACCTACTCCACTGCTACTCAGGGAGAT
1 TCCACTACTGCTTAGGGAGACAAAATTTGCAATCTTCAACCTACTCCACTACTACTCAAGGAGAT
* * *
34721192 AGGGCTAATGGTTTAAATCTGCTTCTCCACTATCTTGAGAAGATAAGATTCACCATCTTCTATCT
66 AGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGAGAAGATAAGATTCACCATCTTCGATCT
* * * * *
34721257 GCTCCACTATTGCTTAGGGTGAGAAAATTTGCAATCTTCAACCTACTCCACTACTGCTCAGGGAG
131 GCTCCACTACTGCCTAAGGTGACAAAATCTGCAATCTTCAACCTACTCCACTACTGCTCAGGGAG
** *
34721322 ATAGGGTTAATGGCTTAAATCTGCTTCTCCACTATCTTGAGAAGATAAGGTTCACCACATTCGAT
196 ATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGAGAAGATAAGATTCACCACATTCGAT
34721387 CTGCTCCACTACTGCTTAGGGTGACAGAATATGCAATCTTCAACCTAC
261 CTGCTCCACTACTGCTTAGGGTGACAGAATATGCAATCTTCAACCTAC
* ** * * ** *
34721435 TCCACTACTGCTTAGGGAGATAGGATCTT-TAATCTTTAACCTACTCCACTACTGTTTAAGGAGA
1 TCCACTACTGCTTAGGGAGACAAAAT-TTGCAATCTTCAACCTACTCCACTACTACTCAAGGAGA
*
34721499 TAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGGGAAGATAAGATTCACCATCTTCGATC
65 TAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGAGAAGATAAGATTCACCATCTTCGATC
* * * *
34721564 TGCTCCACTACTGCCTAAGGTGACAGAATCTGCAATCTTTAACCTACTCCATTACTGCTTAGGGA
130 TGCTCCACTACTGCCTAAGGTGACAAAATCTGCAATCTTCAACCTACTCCACTACTGCTCAGGGA
* *
34721629 GATAGGACTAGTGGCTTAAATCTGCTTCTCCACTATCTTGAGAAGATAAGATTCACCACCTTCGA
195 GATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGAGAAGATAAGATTCACCACATTCGA
34721694 TCTGCTCCACTACTGCTT
260 TCTGCTCCACTACTGCTT
34721712 GGGAGAGTAA
Statistics
Matches: 248, Mismatches: 28, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
308 246 0.99
309 2 0.01
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.31
Consensus pattern (308 bp):
TCCACTACTGCTTAGGGAGACAAAATTTGCAATCTTCAACCTACTCCACTACTACTCAAGGAGAT
AGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGAGAAGATAAGATTCACCATCTTCGATCT
GCTCCACTACTGCCTAAGGTGACAAAATCTGCAATCTTCAACCTACTCCACTACTGCTCAGGGAG
ATAGGACTAATGGCTTAAATCTGCTTCTCCACTATCTTGAGAAGATAAGATTCACCACATTCGAT
CTGCTCCACTACTGCTTAGGGTGACAGAATATGCAATCTTCAACCTAC
Found at i:34721973 original size:87 final size:87
Alignment explanation
Indices: 34721825--34722530 Score: 1141
Period size: 87 Copynumber: 8.2 Consensus size: 87
34721815 GAGGTAAGAT
34721825 TTTGTTTTCGATCTGCTTCGCTGTTAACGC----AGGCAAGATCTGCTATCTTTAACCAGCTCCA
1 TTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCA
34721886 CTGCAACCGATGGAGGCAAGGC
66 CTGCAACCGATGGAGGCAAGGC
* *
34721908 TTTGTTTTCGATCTGCTTCACTGTTAACACAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCA
1 TTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCA
*
34721973 CTGCAATCGATGGAGGCAAGGC
66 CTGCAACCGATGGAGGCAAGGC
* * * * *
34721995 TTTATTTTCGGTCTGCTTTGCTGTTAACGCAGGAAGGCTAGATCTGTTATCTTTAACCAGCTCCA
1 TTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCA
34722060 CTGCAACCGATGGAGGCAAGGC
66 CTGCAACCGATGGAGGCAAGGC
* * * *
34722082 TTTATTTTCGATCTGCTTCGCTGTTAATGCAGGAAGGTAAGATTTGCTATCTTTAACCAGCTCCA
1 TTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCA
*
34722147 CTACAACCGATGGAGGCAAGGC
66 CTGCAACCGATGGAGGCAAGGC
* * *
34722169 TTTGTTTTCGATCTACTTCGCTGTTAACGCAGGAAGGCAAGATTTGCTATCTTTAACAAGCTCCA
1 TTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCA
*
34722234 CTGCAATCGATGGAGGCAAGGC
66 CTGCAACCGATGGAGGCAAGGC
* * * *
34722256 TTTGTTTTTGGTCTGCTTCGCTGTTGACGCAGGAAGGCAAGATCTGTTATCTTTAACCAGCTCCA
1 TTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCA
* *
34722321 CTACAACCGATGGAGGCAAGAC
66 CTGCAACCGATGGAGGCAAGGC
* *
34722343 TTTGTTTTCGATCTGCTTCGTTGTTAACGCAGGAAGGTAAGATCTGCTATCTTTAACCAGCTCCA
1 TTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCA
*
34722408 CTACAACCGATGGAGGCAAGGC
66 CTGCAACCGATGGAGGCAAGGC
34722430 TTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCA
1 TTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCA
34722495 CTGCAACCGATGGAGGCAAGGC
66 CTGCAACCGATGGAGGCAAGGC
*
34722517 TTTATTTTCGATCT
1 TTTGTTTTCGATCT
34722531 TCACTGATCT
Statistics
Matches: 572, Mismatches: 47, Indels: 4
0.92 0.08 0.01
Matches are distributed among these distances:
83 28 0.05
87 544 0.95
ACGTcount: A:0.24, C:0.23, G:0.23, T:0.30
Consensus pattern (87 bp):
TTTGTTTTCGATCTGCTTCGCTGTTAACGCAGGAAGGCAAGATCTGCTATCTTTAACCAGCTCCA
CTGCAACCGATGGAGGCAAGGC
Found at i:34721992 original size:44 final size:43
Alignment explanation
Indices: 34721855--34721992 Score: 113
Period size: 42 Copynumber: 3.2 Consensus size: 43
34721845 CTGTTAACGC
34721855 AGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACCGATGG
1 AGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA-CGATGG
* * ** * * * * *
34721899 AGGCAAGGCTTTG-T-T-TTCGATCTGCTTCACTGTTAAC-ACAGG
1 AGGCAA-GATCTGCTATCTTTAACCAGCTCCACTG-CAACGA-TGG
34721941 AAGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAATCGATGG
1 -AGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAA-CGATGG
34721986 AGGCAAG
1 AGGCAAG
34721993 GCTTTATTTT
Statistics
Matches: 67, Mismatches: 18, Indels: 18
0.65 0.17 0.17
Matches are distributed among these distances:
41 1 0.01
42 19 0.28
43 10 0.15
44 17 0.25
45 19 0.28
46 1 0.01
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.25
Consensus pattern (43 bp):
AGGCAAGATCTGCTATCTTTAACCAGCTCCACTGCAACGATGG
Found at i:34724258 original size:46 final size:46
Alignment explanation
Indices: 34724176--34724285 Score: 118
Period size: 47 Copynumber: 2.4 Consensus size: 46
34724166 TCCTTTTCCC
*
34724176 TTTTC-TTTTC-TCATTTTTATTTTCATTTTGACTTTGA-TTTTGAT
1 TTTTCTTTTTCTTC-TTTTTACTTTCATTTTGACTTTGATTTTTGAT
* * **
34724220 TTTTCTTTTTCTTCTTTTTAACTTTGATTTTGATTTTGATTTTTTCT
1 TTTTCTTTTTCTTCTTTTT-ACTTTCATTTTGACTTTGATTTTTGAT
* *
34724267 TTTTGTTTTTCTTGTTTTT
1 TTTTCTTTTTCTTCTTTTT
34724286 TGAATTGGAT
Statistics
Matches: 55, Mismatches: 7, Indels: 5
0.82 0.10 0.07
Matches are distributed among these distances:
44 5 0.09
45 10 0.18
46 18 0.33
47 22 0.40
ACGTcount: A:0.10, C:0.10, G:0.07, T:0.73
Consensus pattern (46 bp):
TTTTCTTTTTCTTCTTTTTACTTTCATTTTGACTTTGATTTTTGAT
Found at i:34724263 original size:34 final size:32
Alignment explanation
Indices: 34724195--34724270 Score: 98
Period size: 34 Copynumber: 2.3 Consensus size: 32
34724185 CTCATTTTTA
* * **
34724195 TTTTCATTTTGACTTTGATTTTGATTTTTCTTT
1 TTTTCTTTTTAACTTTGATTTTGA-TTTTGATT
34724228 TTCTTCTTTTTAACTTTGATTTTGATTTTGATT
1 TT-TTCTTTTTAACTTTGATTTTGATTTTGATT
34724261 TTTTCTTTTT
1 TTTTCTTTTT
34724271 GTTTTTCTTG
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
32 8 0.21
33 10 0.26
34 20 0.53
ACGTcount: A:0.12, C:0.09, G:0.08, T:0.71
Consensus pattern (32 bp):
TTTTCTTTTTAACTTTGATTTTGATTTTGATT
Found at i:34732314 original size:21 final size:22
Alignment explanation
Indices: 34732288--34732329 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
34732278 TAAATTGGAT
* *
34732288 CTAAACACAT-AAATTTAAAAC
1 CTAAACAAATCAAATATAAAAC
34732309 CTAAACAAATCAAATATAAAA
1 CTAAACAAATCAAATATAAAA
34732330 ACAACTTAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 9 0.50
22 9 0.50
ACGTcount: A:0.62, C:0.17, G:0.00, T:0.21
Consensus pattern (22 bp):
CTAAACAAATCAAATATAAAAC
Found at i:34738288 original size:19 final size:19
Alignment explanation
Indices: 34738257--34738306 Score: 59
Period size: 19 Copynumber: 2.7 Consensus size: 19
34738247 GGAGAAGAAG
*
34738257 AAGAAAA-GAAAAGAA-AA
1 AAGAAAAGGGAAAGAATAA
*
34738274 ATAGAAATGGGAAAGAATAA
1 A-AGAAAAGGGAAAGAATAA
34738294 AAGAAAAGGGAAA
1 AAGAAAAGGGAAA
34738307 AATGAGAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
17 1 0.04
18 5 0.19
19 18 0.67
20 3 0.11
ACGTcount: A:0.70, C:0.00, G:0.24, T:0.06
Consensus pattern (19 bp):
AAGAAAAGGGAAAGAATAA
Found at i:34738454 original size:24 final size:23
Alignment explanation
Indices: 34738401--34738446 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
34738391 TTAACGGTGT
34738401 TAGAAAAAGTACCAAACTAGTAG
1 TAGAAAAAGTACCAAACTAGTAG
34738424 TAGAAAAAGTACCAAACTAGTAG
1 TAGAAAAAGTACCAAACTAGTAG
34738447 ACGGAAAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.52, C:0.13, G:0.17, T:0.17
Consensus pattern (23 bp):
TAGAAAAAGTACCAAACTAGTAG
Found at i:34741637 original size:15 final size:15
Alignment explanation
Indices: 34741613--34741659 Score: 51
Period size: 15 Copynumber: 3.1 Consensus size: 15
34741603 AACTAATATA
34741613 ATTAAA-TTAATTTT
1 ATTAAATTTAATTTT
*
34741627 ATTAAATTTAAGTTT
1 ATTAAATTTAATTTT
*
34741642 ATTATAATATATATTTT
1 ATTA-AATTTA-ATTTT
34741659 A
1 A
34741660 ATTGCAGTAC
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
14 6 0.22
15 11 0.41
16 5 0.19
17 5 0.19
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (15 bp):
ATTAAATTTAATTTT
Found at i:34763613 original size:74 final size:74
Alignment explanation
Indices: 34763487--34763635 Score: 280
Period size: 74 Copynumber: 2.0 Consensus size: 74
34763477 TTAAAATGAA
* *
34763487 AATAAAATTCTCGAACAATGCCTTCATCAAAAAAAGATTGGACATCAGAAAACAACTTCCGTCCT
1 AATAAAATTCTCGAACAATGCCTTCATCAAAAAAAGATTGGACATCACAAAACAACTTCCATCCT
34763552 AGTTCATCT
66 AGTTCATCT
34763561 AATAAAATTCTCGAACAATGCCTTCATCAAAAAAAGATTGGACATCACAAAACAACTTCCATCCT
1 AATAAAATTCTCGAACAATGCCTTCATCAAAAAAAGATTGGACATCACAAAACAACTTCCATCCT
34763626 AGTTCATCT
66 AGTTCATCT
34763635 A
1 A
34763636 CGGTTTCTAA
Statistics
Matches: 73, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
74 73 1.00
ACGTcount: A:0.42, C:0.23, G:0.09, T:0.26
Consensus pattern (74 bp):
AATAAAATTCTCGAACAATGCCTTCATCAAAAAAAGATTGGACATCACAAAACAACTTCCATCCT
AGTTCATCT
Found at i:34764166 original size:27 final size:27
Alignment explanation
Indices: 34764100--34764151 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
34764090 CACTAATGTT
* * *
34764100 TCGGTGAACTGGGTGTTCGCCAGTGTG
1 TCGGCGAAATGGGTGTTCACCAGTGTG
34764127 TCGGCGAAATGGGTGTTCACCAGTG
1 TCGGCGAAATGGGTGTTCACCAGTG
34764152 CTTGGACGAA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.15, C:0.19, G:0.38, T:0.27
Consensus pattern (27 bp):
TCGGCGAAATGGGTGTTCACCAGTGTG
Found at i:34765089 original size:31 final size:31
Alignment explanation
Indices: 34765054--34765115 Score: 97
Period size: 31 Copynumber: 2.0 Consensus size: 31
34765044 GTTTTCAAGC
*
34765054 AAGCTCTCTATGCGAGCTCTTTGTGGTAAGT
1 AAGCTCTCTATGCGAGCTCTTTGTGATAAGT
* *
34765085 AAGCTCTTTGTGCGAGCTCTTTGTGATAAGT
1 AAGCTCTCTATGCGAGCTCTTTGTGATAAGT
34765116 CTTTGTGCTT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.19, C:0.18, G:0.26, T:0.37
Consensus pattern (31 bp):
AAGCTCTCTATGCGAGCTCTTTGTGATAAGT
Found at i:34769082 original size:24 final size:25
Alignment explanation
Indices: 34769022--34769085 Score: 67
Period size: 24 Copynumber: 2.6 Consensus size: 25
34769012 CCGACATTAA
*
34769022 CTCTCATGAGCTTCCTGTTATATGG
1 CTCTTATGAGCTTCCTGTTATATGG
* *** *
34769047 TTCTTGCAAGCTTTCTGTT-TATGG
1 CTCTTATGAGCTTCCTGTTATATGG
34769071 CTCTTATGAGCTTCC
1 CTCTTATGAGCTTCC
34769086 AAATATAGGC
Statistics
Matches: 28, Mismatches: 11, Indels: 1
0.70 0.28 0.03
Matches are distributed among these distances:
24 15 0.54
25 13 0.46
ACGTcount: A:0.14, C:0.23, G:0.19, T:0.44
Consensus pattern (25 bp):
CTCTTATGAGCTTCCTGTTATATGG
Found at i:34769167 original size:24 final size:23
Alignment explanation
Indices: 34769132--34769176 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
34769122 CTCTGGAGTT
*
34769132 TTCCGATGTTGGCTCACATGAAC
1 TTCCGATATTGGCTCACATGAAC
*
34769155 TTCCTGATATTGGCTCATATGA
1 TTCC-GATATTGGCTCACATGA
34769177 GTTTCCCATT
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 4 0.21
24 15 0.79
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.36
Consensus pattern (23 bp):
TTCCGATATTGGCTCACATGAAC
Found at i:34769182 original size:24 final size:23
Alignment explanation
Indices: 34769131--34769182 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 23
34769121 TCTCTGGAGT
*
34769131 TTTCCGATGTTGGCTCACATGAA
1 TTTCCGATATTGGCTCACATGAA
* * *
34769154 CTTCCTGATATTGGCTCATATGAG
1 TTTCC-GATATTGGCTCACATGAA
34769178 TTTCC
1 TTTCC
34769183 CATTAATGGT
Statistics
Matches: 23, Mismatches: 5, Indels: 1
0.79 0.17 0.03
Matches are distributed among these distances:
23 4 0.17
24 19 0.83
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.38
Consensus pattern (23 bp):
TTTCCGATATTGGCTCACATGAA
Found at i:34769227 original size:25 final size:24
Alignment explanation
Indices: 34769141--34769244 Score: 86
Period size: 24 Copynumber: 4.2 Consensus size: 24
34769131 TTTCCGATGT
* * *
34769141 TGGCTCACATGAACTTCCTGA-TAT
1 TGGCTCACATGAGCTTCC-CATTAA
* *
34769165 TGGCTCATATGAGTTTCCCATTAA
1 TGGCTCACATGAGCTTCCCATTAA
* *
34769189 TGGTTCTC-TAGAGCTTCCCATTACA
1 TGGCTCACAT-GAGCTTCCCATTA-A
*
34769214 TGGCTCACATGAGCTTCCCGTTATA
1 TGGCTCACATGAGCTTCCCATTA-A
34769239 TGGCTC
1 TGGCTC
34769245 GAAAGAGCTT
Statistics
Matches: 63, Mismatches: 13, Indels: 7
0.76 0.16 0.08
Matches are distributed among these distances:
23 2 0.03
24 34 0.54
25 26 0.41
26 1 0.02
ACGTcount: A:0.21, C:0.26, G:0.18, T:0.35
Consensus pattern (24 bp):
TGGCTCACATGAGCTTCCCATTAA
Found at i:34769252 original size:25 final size:25
Alignment explanation
Indices: 34769165--34769256 Score: 80
Period size: 25 Copynumber: 3.7 Consensus size: 25
34769155 TTCCTGATAT
* * *
34769165 TGGCTCATATGAGTTTCCCATTA-A
1 TGGCTCACAAGAGCTTCCCATTACA
* * *
34769189 TGGTTCTCTAGAGCTTCCCATTACA
1 TGGCTCACAAGAGCTTCCCATTACA
* * *
34769214 TGGCTCACATGAGCTTCCCGTTATA
1 TGGCTCACAAGAGCTTCCCATTACA
34769239 TGGCTCGA-AAGAGCTTCC
1 TGGCTC-ACAAGAGCTTCC
34769257 TGTTTACATG
Statistics
Matches: 53, Mismatches: 13, Indels: 3
0.77 0.19 0.04
Matches are distributed among these distances:
24 17 0.32
25 35 0.66
26 1 0.02
ACGTcount: A:0.22, C:0.26, G:0.20, T:0.33
Consensus pattern (25 bp):
TGGCTCACAAGAGCTTCCCATTACA
Found at i:34778618 original size:22 final size:23
Alignment explanation
Indices: 34778592--34778634 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
34778582 ACTTAAATTT
*
34778592 TTAAATT-TCGAAAATAAAAAAA
1 TTAAATTCTCAAAAATAAAAAAA
*
34778614 TTAAATTCTTAAAAATAAAAA
1 TTAAATTCTCAAAAATAAAAA
34778635 TACGAGGAAC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 7 0.39
23 11 0.61
ACGTcount: A:0.63, C:0.05, G:0.02, T:0.30
Consensus pattern (23 bp):
TTAAATTCTCAAAAATAAAAAAA
Found at i:34796653 original size:51 final size:50
Alignment explanation
Indices: 34796530--34796663 Score: 171
Period size: 50 Copynumber: 2.7 Consensus size: 50
34796520 AAAGTGATGG
* * *
34796530 TCACGTATGTAGTACTATGTGCAGGCTACTACGCGTACCAGAATGATAGG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGAATGATAGA
* * * * *
34796580 TCGCATGTGTAGTACTATGTGCAGACTACTATGCGTACCAG-ATAGTTTCGA
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGAAT-G-ATAGA
34796631 TCACGTGTGTAGTACTATGTGCAGGCTACTATG
1 TCACGTGTGTAGTACTATGTGCAGGCTACTATG
34796664 TGAACCGAAC
Statistics
Matches: 71, Mismatches: 11, Indels: 3
0.84 0.13 0.04
Matches are distributed among these distances:
49 2 0.03
50 37 0.52
51 32 0.45
ACGTcount: A:0.25, C:0.19, G:0.25, T:0.30
Consensus pattern (50 bp):
TCACGTGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGAATGATAGA
Found at i:34798450 original size:16 final size:16
Alignment explanation
Indices: 34798429--34798460 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
34798419 GTTTTGTTGC
*
34798429 TAATTTTACTTTTTCA
1 TAATTTCACTTTTTCA
34798445 TAATTTCACTTTTTCA
1 TAATTTCACTTTTTCA
34798461 CTTTCAATCA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.25, C:0.16, G:0.00, T:0.59
Consensus pattern (16 bp):
TAATTTCACTTTTTCA
Found at i:34798747 original size:51 final size:51
Alignment explanation
Indices: 34798688--34798878 Score: 185
Period size: 51 Copynumber: 3.8 Consensus size: 51
34798678 CCGGATCACA
** *
34798688 TAGTAGCCTATACATAGTACTACACATGTGACCATCACTATCCGATACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGATACACG
* * * *
34798739 TAGTAGCCTGCATATAGTACTACACACGTGATCGA--AGCTATCC-AGTACGCA
1 TAGTAGCCTGCACATAGTACTACACACGTGA-CCATCA-CTATCCGA-TACACG
* * * *
34798790 TAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACG
1 TAGTAGCCTGCACATAGTACTACACACGTGACC-ATCACTATCCGATACACG
* * *
34798840 TAGTAGCCTGCAAATAGCACTACATACGTGACCATCACT
1 TAGTAGCCTGCACATAGTACTACACACGTGACCATCACT
34798879 TTCACTTTCA
Statistics
Matches: 112, Mismatches: 20, Indels: 17
0.75 0.13 0.11
Matches are distributed among these distances:
49 4 0.04
50 38 0.34
51 67 0.60
52 2 0.02
53 1 0.01
ACGTcount: A:0.31, C:0.27, G:0.17, T:0.25
Consensus pattern (51 bp):
TAGTAGCCTGCACATAGTACTACACACGTGACCATCACTATCCGATACACG
Found at i:34798869 original size:101 final size:102
Alignment explanation
Indices: 34798686--34798870 Score: 275
Period size: 101 Copynumber: 1.8 Consensus size: 102
34798676 TACCGGATCA
* *
34798686 CATAGTAGCCTATACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGTAGCCTGCA
1 CATAGTAGCCTACACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCCTGCA
* *
34798751 TATAGTACTACACACGTGATCGAAGCTATCCAGTACG
66 AATAGCACTACACACGTGATCGAAGCTATCCAGTACG
* * *
34798788 CATAGTAGCCTGCACATAGTACTACACATGCGACCTATCA-T-TCTGGTACACGTAGTAGCCTGC
1 CATAGTAGCCTACACATAGTACTACACATGCGACC-ATCACTATCCGATACACGTAGTAGCCTGC
*
34798851 AAATAGCACTACATACGTGA
65 AAATAGCACTACACACGTGA
34798871 CCATCACTTT
Statistics
Matches: 74, Mismatches: 8, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
101 37 0.50
102 33 0.45
103 4 0.05
ACGTcount: A:0.32, C:0.26, G:0.17, T:0.24
Consensus pattern (102 bp):
CATAGTAGCCTACACATAGTACTACACATGCGACCATCACTATCCGATACACGTAGTAGCCTGCA
AATAGCACTACACACGTGATCGAAGCTATCCAGTACG
Found at i:34803712 original size:17 final size:18
Alignment explanation
Indices: 34803690--34803750 Score: 61
Period size: 20 Copynumber: 3.3 Consensus size: 18
34803680 TTATCGATGC
34803690 ATATATATAAACTAT-TA
1 ATATATATAAACTATATA
* *
34803707 ATATATTATATACTATATG
1 ATATA-TATAAACTATATA
*
34803726 ATATGATATAACATTATATA
1 ATAT-ATATAA-ACTATATA
34803746 ATATA
1 ATATA
34803751 GTAAGATGGC
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
17 5 0.14
18 9 0.26
19 10 0.29
20 11 0.31
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.43
Consensus pattern (18 bp):
ATATATATAAACTATATA
Found at i:34808398 original size:27 final size:29
Alignment explanation
Indices: 34808358--34808414 Score: 75
Period size: 27 Copynumber: 2.0 Consensus size: 29
34808348 ATGGATGACT
*
34808358 CAACTCTTGTTCAAAC-ACTTGTTTGAACA
1 CAACTCTTGTTCAAACAACTT-TTTAAACA
34808387 CAAC-CTT-TTCAAACAACTTTTTAAACA
1 CAACTCTTGTTCAAACAACTTTTTAAACA
34808414 C
1 C
34808415 TTATTTAGAC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
27 15 0.58
28 7 0.27
29 4 0.15
ACGTcount: A:0.35, C:0.26, G:0.05, T:0.33
Consensus pattern (29 bp):
CAACTCTTGTTCAAACAACTTTTTAAACA
Found at i:34810887 original size:63 final size:63
Alignment explanation
Indices: 34810816--34811112 Score: 353
Period size: 63 Copynumber: 4.7 Consensus size: 63
34810806 ACACGACTTG
* * ** * *
34810816 GACACACGCCCGTGTCCCTAGCTAGTGTGACCTTAAATCCAAAATAATGAGTTACACGGCCT-
1 GACACAAGCCCATGTCCCTAGCCCGTGTGACCTTAAATCCAAAATAATAAGTTACACGGGCTA
* * * * * *
34810878 GCACACACGCCTATGTCCCTAGCCCGTGTGACCTTAAATCCAAAACAGTGAGTTACACGGGCTG
1 G-ACACAAGCCCATGTCCCTAGCCCGTGTGACCTTAAATCCAAAATAATAAGTTACACGGGCTA
* * * *
34810942 GACACAAGGCCATGTACCTAGCCCGTGTGACCCTAAATCCAAAACAATAAGTTACACGGGCTA
1 GACACAAGCCCATGTCCCTAGCCCGTGTGACCTTAAATCCAAAATAATAAGTTACACGGGCTA
* * * * * * *
34811005 GAGATAAGCCCATGTCCCTAGCTCATGTGACCCTAAATCCAAAATAGTAAGTTAAACGGGCTA
1 GACACAAGCCCATGTCCCTAGCCCGTGTGACCTTAAATCCAAAATAATAAGTTACACGGGCTA
* *
34811068 GACACAAGCCTATGTCCCTAGCCCGTGTGACCTTAAATCTAAAAT
1 GACACAAGCCCATGTCCCTAGCCCGTGTGACCTTAAATCCAAAAT
34811113 GGTGAGTTCC
Statistics
Matches: 202, Mismatches: 31, Indels: 3
0.86 0.13 0.01
Matches are distributed among these distances:
62 1 0.00
63 200 0.99
64 1 0.00
ACGTcount: A:0.31, C:0.28, G:0.19, T:0.21
Consensus pattern (63 bp):
GACACAAGCCCATGTCCCTAGCCCGTGTGACCTTAAATCCAAAATAATAAGTTACACGGGCTA
Found at i:34811713 original size:18 final size:18
Alignment explanation
Indices: 34811679--34811730 Score: 61
Period size: 18 Copynumber: 2.9 Consensus size: 18
34811669 GAAAGCAAGC
34811679 AAAAAGAAAAATA-AAAGA
1 AAAAAGAAAAA-AGAAAGA
* * *
34811697 AAGATGAAAGAAGAAAGA
1 AAAAAGAAAAAAGAAAGA
34811715 AAAAAGAAAAAAGAAA
1 AAAAAGAAAAAAGAAA
34811731 ACGTTAAAGA
Statistics
Matches: 27, Mismatches: 6, Indels: 2
0.77 0.17 0.06
Matches are distributed among these distances:
17 1 0.04
18 26 0.96
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.04
Consensus pattern (18 bp):
AAAAAGAAAAAAGAAAGA
Found at i:34811730 original size:7 final size:7
Alignment explanation
Indices: 34811679--34811731 Score: 54
Period size: 7 Copynumber: 7.4 Consensus size: 7
34811669 GAAAGCAAGC
34811679 AAAAAGA
1 AAAAAGA
34811686 AAAATA-A
1 AAAA-AGA
34811693 AAGAAAGA
1 AA-AAAGA
**
34811701 TGAAAGA
1 AAAAAGA
*
34811708 AGAAAGA
1 AAAAAGA
34811715 AAAAAGA
1 AAAAAGA
34811722 AAAAAGA
1 AAAAAGA
34811729 AAA
1 AAA
34811732 CGTTAAAGAA
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
7 35 0.90
8 4 0.10
ACGTcount: A:0.79, C:0.00, G:0.17, T:0.04
Consensus pattern (7 bp):
AAAAAGA
Found at i:34815535 original size:26 final size:26
Alignment explanation
Indices: 34815498--34815550 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
34815488 TTGAGTAAAA
34815498 AGGGGTTACTAAGTGCTGATTCCCCG
1 AGGGGTTACTAAGTGCTGATTCCCCG
*
34815524 AGGGGTTGCTAAGTGCTGATTCCCCG
1 AGGGGTTACTAAGTGCTGATTCCCCG
34815550 A
1 A
34815551 ATTATTGACT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.19, C:0.23, G:0.32, T:0.26
Consensus pattern (26 bp):
AGGGGTTACTAAGTGCTGATTCCCCG
Found at i:34815668 original size:85 final size:83
Alignment explanation
Indices: 34815524--34815761 Score: 282
Period size: 85 Copynumber: 2.8 Consensus size: 83
34815514 TGATTCCCCG
* * * *
34815524 AGGGGTTGCTAAGTGCTGATTCCCCGAATTATTGACTTTAAAGGTGGTTGCTAAGTGCTGATCCC
1 AGGGGTTGCTAAGTGCTGATTCCCCGTATCACTGA-ATTAAAGGTGGTTGCTAAGTGCTGAT-CC
* **
34815589 ACCGTATTTTTAATTATGAA
64 ACCGAATCCTTAATTATGAA
* *
34815609 TGGGGTTGCTAAGTGCTGATTCCCTGTATCGA-TGAATATAAAGGTGGTTGCTAAGTGCTGATTC
1 AGGGGTTGCTAAGTGCTGATTCCCCGTATC-ACTGAAT-TAAAGGTGGTTGCTAAGTGCTGA-TC
* *
34815673 CACCGAATCCTTCATTGTGAA
63 CACCGAATCCTTAATTATGAA
* * *
34815694 AGGGGTT-CTATGTGCTGATTCCCCGTATCACTGAATTTAGGGTGGTTGCTAAGTGCTGAATCCA
1 AGGGGTTGCTAAGTGCTGATTCCCCGTATCACTGAATTAAAGGTGGTTGCTAAGTGCTG-ATCCA
34815758 CCGA
65 CCGA
34815762 GTAACGGATA
Statistics
Matches: 133, Mismatches: 15, Indels: 12
0.83 0.09 0.08
Matches are distributed among these distances:
83 29 0.22
84 27 0.20
85 75 0.56
86 2 0.02
ACGTcount: A:0.23, C:0.18, G:0.26, T:0.33
Consensus pattern (83 bp):
AGGGGTTGCTAAGTGCTGATTCCCCGTATCACTGAATTAAAGGTGGTTGCTAAGTGCTGATCCAC
CGAATCCTTAATTATGAA
Found at i:34815670 original size:42 final size:42
Alignment explanation
Indices: 34815527--34815752 Score: 180
Period size: 42 Copynumber: 5.4 Consensus size: 42
34815517 TTCCCCGAGG
* * *
34815527 GGTTGCTAAGTGCTGATTCCCCGAAT-TATTGACTTTAAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATCTA-TGAATATAAAGGT
* * * *
34815569 GGTTGCTAAGTGCTGATCCCACCGTAT-TTTTAATTATGAATGG-
1 GGTTGCTAAGTGCTGATTCC-CCGTATCTATGAA-TAT-AAAGGT
* *
34815612 GGTTGCTAAGTGCTGATTCCCTGTATCGATGAATATAAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATCTATGAATATAAAGGT
* * * *
34815654 GGTTGCTAAGTGCTGATTCCACCGAATCCT-TCATTGTGAAAGG-
1 GGTTGCTAAGTGCTGATTCC-CCGTAT-CTATGAATAT-AAAGGT
* * *
34815697 GGTT-CTATGTGCTGATTCCCCGTATC-ACTGAAT-TTAGGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATCTA-TGAATATAAAGGT
34815737 GGTTGCTAAGTGCTGA
1 GGTTGCTAAGTGCTGA
34815753 ATCCACCGAG
Statistics
Matches: 146, Mismatches: 26, Indels: 25
0.74 0.13 0.13
Matches are distributed among these distances:
39 3 0.02
40 6 0.04
41 22 0.15
42 63 0.43
43 42 0.29
44 10 0.07
ACGTcount: A:0.23, C:0.17, G:0.26, T:0.35
Consensus pattern (42 bp):
GGTTGCTAAGTGCTGATTCCCCGTATCTATGAATATAAAGGT
Found at i:34831337 original size:40 final size:40
Alignment explanation
Indices: 34831293--34831368 Score: 98
Period size: 40 Copynumber: 1.9 Consensus size: 40
34831283 AGCTATGTCG
*
34831293 AAGTTTATCAGTTAGGAGAATAGGTCCGCGAGCTGTGTTA
1 AAGTTTATCAGCTAGGAGAATAGGTCCGCGAGCTGTGTTA
* ** * *
34831333 AAGTTTATTAGCTAGGAGTGTAGGTTCGTGAGCTGT
1 AAGTTTATCAGCTAGGAGAATAGGTCCGCGAGCTGT
34831369 TTCAGAGTTG
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
40 30 1.00
ACGTcount: A:0.25, C:0.11, G:0.32, T:0.33
Consensus pattern (40 bp):
AAGTTTATCAGCTAGGAGAATAGGTCCGCGAGCTGTGTTA
Found at i:34831528 original size:104 final size:104
Alignment explanation
Indices: 34831348--34831576 Score: 307
Period size: 104 Copynumber: 2.2 Consensus size: 104
34831338 TATTAGCTAG
* * * * *
34831348 GAGTGTAGGTTCGTGAGCTGTTTCAGAGTTGTGAGCTTAACTCATCTAAGTTAAATAAATGAAGG
1 GAGTGTAGGTCCGTGAGCTGTTTCAGAGTTGCGAGCTTAACTCAGCTAACTCAAATAAATGAAGG
* *
34831413 ATATGAGCATAACTCAACTAACCTTTAAACATCAGCTGA
66 ATATAAGCATAACTCAACTAACCTTTAAACATCACCTGA
*
34831452 GAGTGTAGGTCCGCT-AGTTGTTTCAGAGTTGCGAGCTTAACTCAGCTAACTCAAATAAATGAAG
1 GAGTGTAGGTCCG-TGAGCTGTTTCAGAGTTGCGAGCTTAACTCAGCTAACTCAAATAAATGAAG
* * * * *
34831516 GCTGTAAGCATAACTCAAGTAACCTTTAAACATTACCTGG
65 GATATAAGCATAACTCAACTAACCTTTAAACATCACCTGA
* *
34831556 GAGTGTAGGTCTGCGAGCTGT
1 GAGTGTAGGTCCGTGAGCTGT
34831577 GTTGAAGTTT
Statistics
Matches: 107, Mismatches: 16, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
104 106 0.99
105 1 0.01
ACGTcount: A:0.31, C:0.17, G:0.23, T:0.29
Consensus pattern (104 bp):
GAGTGTAGGTCCGTGAGCTGTTTCAGAGTTGCGAGCTTAACTCAGCTAACTCAAATAAATGAAGG
ATATAAGCATAACTCAACTAACCTTTAAACATCACCTGA
Found at i:34835334 original size:48 final size:47
Alignment explanation
Indices: 34835301--34835499 Score: 344
Period size: 48 Copynumber: 4.1 Consensus size: 47
34835291 ATTTCTTGAT
34835301 TTTTAATAAAATATTAAAGTCCTTATTTTAAATATTGATTAGTCCTTA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAAATATTGATTA-TCCTTA
*
34835349 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAAATATTGATTA-TCCTTA
34835397 TTTTAATAAAATATTAAAGTCCTTATTTTAAATATTGATTAGTCCTTA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAAATATTGATTA-TCCTTA
*
34835445 TTTTAATAAAATATTAAAGTCCTTATTTTAATTATTGATTAGTCCTTA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAAATATTGATTA-TCCTTA
34835493 TTTTAAT
1 TTTTAAT
34835500 TATTGATGTA
Statistics
Matches: 148, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 148 1.00
ACGTcount: A:0.36, C:0.08, G:0.06, T:0.50
Consensus pattern (47 bp):
TTTTAATAAAATATTAAAGTCCTTATTTTAAATATTGATTATCCTTA
Found at i:34835348 original size:23 final size:23
Alignment explanation
Indices: 34835318--34835506 Score: 195
Period size: 23 Copynumber: 8.0 Consensus size: 23
34835308 AAAATATTAA
34835318 AGTCCTTATTTTAAATATTGATT
1 AGTCCTTATTTTAAATATTGATT
* *
34835341 AGTCCTTATTTTAATAAAAT-ATT
1 AGTCCTTATTTTAA-ATATTGATT
*
34835364 AAAGTCCTTATTTTAATTATTGATT
1 --AGTCCTTATTTTAAATATTGATT
* *
34835389 AGTCCTTATTTTAATAAAAT-ATT
1 AGTCCTTATTTTAA-ATATTGATT
34835412 AAAGTCCTTATTTTAAATATTGATT
1 --AGTCCTTATTTTAAATATTGATT
* *
34835437 AGTCCTTATTTTAATAAAAT-ATT
1 AGTCCTTATTTTAA-ATATTGATT
*
34835460 AAAGTCCTTATTTTAATTATTGATT
1 --AGTCCTTATTTTAAATATTGATT
*
34835485 AGTCCTTATTTTAATTATTGAT
1 AGTCCTTATTTTAAATATTGAT
34835507 GTAATTATTT
Statistics
Matches: 139, Mismatches: 15, Indels: 24
0.78 0.08 0.13
Matches are distributed among these distances:
23 73 0.53
24 15 0.11
25 51 0.37
ACGTcount: A:0.34, C:0.08, G:0.07, T:0.50
Consensus pattern (23 bp):
AGTCCTTATTTTAAATATTGATT
Found at i:34835430 original size:96 final size:96
Alignment explanation
Indices: 34835301--34835499 Score: 398
Period size: 96 Copynumber: 2.1 Consensus size: 96
34835291 ATTTCTTGAT
34835301 TTTTAATAAAATATTAAAGTCCTTATTTTAAATATTGATTAGTCCTTATTTTAATAAAATATTAA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAAATATTGATTAGTCCTTATTTTAATAAAATATTAA
34835366 AGTCCTTATTTTAATTATTGATTAGTCCTTA
66 AGTCCTTATTTTAATTATTGATTAGTCCTTA
34835397 TTTTAATAAAATATTAAAGTCCTTATTTTAAATATTGATTAGTCCTTATTTTAATAAAATATTAA
1 TTTTAATAAAATATTAAAGTCCTTATTTTAAATATTGATTAGTCCTTATTTTAATAAAATATTAA
34835462 AGTCCTTATTTTAATTATTGATTAGTCCTTA
66 AGTCCTTATTTTAATTATTGATTAGTCCTTA
34835493 TTTTAAT
1 TTTTAAT
34835500 TATTGATGTA
Statistics
Matches: 103, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
96 103 1.00
ACGTcount: A:0.36, C:0.08, G:0.06, T:0.50
Consensus pattern (96 bp):
TTTTAATAAAATATTAAAGTCCTTATTTTAAATATTGATTAGTCCTTATTTTAATAAAATATTAA
AGTCCTTATTTTAATTATTGATTAGTCCTTA
Found at i:34836719 original size:23 final size:23
Alignment explanation
Indices: 34836693--34836768 Score: 134
Period size: 23 Copynumber: 3.3 Consensus size: 23
34836683 TAAACAAATT
34836693 CAATTTCCAGCAGACAATCAAAA
1 CAATTTCCAGCAGACAATCAAAA
*
34836716 CAATTTCCAGCAGACAATCATAA
1 CAATTTCCAGCAGACAATCAAAA
*
34836739 CAATTTCCAACAGACAATCAAAA
1 CAATTTCCAGCAGACAATCAAAA
34836762 CAATTTC
1 CAATTTC
34836769 AGAACAAATC
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 50 1.00
ACGTcount: A:0.46, C:0.26, G:0.07, T:0.21
Consensus pattern (23 bp):
CAATTTCCAGCAGACAATCAAAA
Found at i:34836797 original size:22 final size:21
Alignment explanation
Indices: 34836754--34836799 Score: 58
Period size: 22 Copynumber: 2.1 Consensus size: 21
34836744 TCCAACAGAC
*
34836754 AATCAAAACAATTTCAGAACA
1 AATCAAAACAATATCAGAACA
34836775 AATCAAGAACAATATCA-ATACA
1 AATCAA-AACAATATCAGA-ACA
34836797 AAT
1 AAT
34836800 GCAACAAAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
21 7 0.32
22 15 0.68
ACGTcount: A:0.59, C:0.17, G:0.04, T:0.20
Consensus pattern (21 bp):
AATCAAAACAATATCAGAACA
Found at i:34837986 original size:17 final size:17
Alignment explanation
Indices: 34837964--34837999 Score: 63
Period size: 17 Copynumber: 2.1 Consensus size: 17
34837954 ACTCAAAGGG
34837964 AAATAAACAACAATAGA
1 AAATAAACAACAATAGA
*
34837981 AAATAAACAGCAATAGA
1 AAATAAACAACAATAGA
34837998 AA
1 AA
34838000 CATGCAATCG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.69, C:0.11, G:0.08, T:0.11
Consensus pattern (17 bp):
AAATAAACAACAATAGA
Found at i:34839625 original size:28 final size:29
Alignment explanation
Indices: 34839565--34839625 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 29
34839555 TTTTCTTATT
34839565 TTGATACCTAAACATTTTTTTATCATAAG
1 TTGATACCTAAACATTTTTTTATCATAAG
* *
34839594 -TGATACCTAAA-TTGTTTTTTTTC-TAAG
1 TTGATACCTAAACAT-TTTTTTATCATAAG
34839621 TTGAT
1 TTGAT
34839626 CTCTGTTAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 5
0.80 0.06 0.14
Matches are distributed among these distances:
27 5 0.18
28 23 0.82
ACGTcount: A:0.30, C:0.11, G:0.10, T:0.49
Consensus pattern (29 bp):
TTGATACCTAAACATTTTTTTATCATAAG
Found at i:34841579 original size:11 final size:11
Alignment explanation
Indices: 34841559--34841608 Score: 50
Period size: 11 Copynumber: 4.6 Consensus size: 11
34841549 ATTATAGAGG
*
34841559 AAGAAGAGAAA
1 AAGAAAAGAAA
34841570 AAGAAAAG-AA
1 AAGAAAAGAAA
*
34841580 AAGAAAGAGAGA
1 AAGAAA-AGAAA
*
34841592 AA-AAAAGTAA
1 AAGAAAAGAAA
34841602 AAGAAAA
1 AAGAAAA
34841609 AAGGAATTTG
Statistics
Matches: 32, Mismatches: 4, Indels: 6
0.76 0.10 0.14
Matches are distributed among these distances:
10 13 0.41
11 16 0.50
12 3 0.09
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (11 bp):
AAGAAAAGAAA
Found at i:34841584 original size:16 final size:16
Alignment explanation
Indices: 34841559--34841608 Score: 57
Period size: 16 Copynumber: 3.1 Consensus size: 16
34841549 ATTATAGAGG
*
34841559 AAGAAGAGAAAAAGAA
1 AAGAAAAGAAAAAGAA
*
34841575 AAGAAAAGAAAGAGAGA
1 AAGAAAAGAAAAAGA-A
*
34841592 AA-AAAAGTAAAAGAA
1 AAGAAAAGAAAAAGAA
34841607 AA
1 AA
34841609 AAGGAATTTG
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
15 3 0.10
16 23 0.79
17 3 0.10
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (16 bp):
AAGAAAAGAAAAAGAA
Found at i:34841588 original size:22 final size:22
Alignment explanation
Indices: 34841562--34841607 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
34841552 ATAGAGGAAG
34841562 AAGAGAAAAAGAAAAG-AAAAGA
1 AAGAGAAAAA-AAAAGTAAAAGA
*
34841584 AAGAGAGAAAAAAAGTAAAAGA
1 AAGAGAAAAAAAAAGTAAAAGA
34841606 AA
1 AA
34841608 AAAGGAATTT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 5 0.23
22 17 0.77
ACGTcount: A:0.76, C:0.00, G:0.22, T:0.02
Consensus pattern (22 bp):
AAGAGAAAAAAAAAGTAAAAGA
Found at i:34846954 original size:21 final size:21
Alignment explanation
Indices: 34846929--34846970 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
34846919 AACCAAATAT
*
34846929 ACAACTTTAAAAATTTATTTA
1 ACAACCTTAAAAATTTATTTA
* *
34846950 ACAACCTTCAACATTTATTTA
1 ACAACCTTAAAAATTTATTTA
34846971 GTAAACTATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.43, C:0.17, G:0.00, T:0.40
Consensus pattern (21 bp):
ACAACCTTAAAAATTTATTTA
Found at i:34850200 original size:21 final size:21
Alignment explanation
Indices: 34850185--34850224 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
34850175 TGACTGACTG
*
34850185 GACAGTATATTGGACTAGATC
1 GACAGTACATTGGACTAGATC
34850206 GACAGTACATTGGACTAGA
1 GACAGTACATTGGACTAGA
34850225 CCCAAGAAGA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.35, C:0.15, G:0.25, T:0.25
Consensus pattern (21 bp):
GACAGTACATTGGACTAGATC
Found at i:34862351 original size:25 final size:23
Alignment explanation
Indices: 34862305--34862365 Score: 63
Period size: 25 Copynumber: 2.6 Consensus size: 23
34862295 TGCTAACTAA
34862305 ATGAATG-GGAAAATGAAGGGTTT
1 ATGAATGAGGAAAATGAAGGG-TT
34862328 ATGAATGAGAGAAAATG-AGAGGTT
1 ATGAATGAG-GAAAATGAAG-GGTT
*
34862352 AGTGAATGATGAAA
1 A-TGAATGAGGAAA
34862366 GGAAATGAAG
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
23 7 0.21
24 10 0.30
25 16 0.48
ACGTcount: A:0.44, C:0.00, G:0.33, T:0.23
Consensus pattern (23 bp):
ATGAATGAGGAAAATGAAGGGTT
Found at i:34863718 original size:2 final size:2
Alignment explanation
Indices: 34863711--34863749 Score: 69
Period size: 2 Copynumber: 19.5 Consensus size: 2
34863701 TAGAGATTTT
*
34863711 TC TC TC TC TC TC TC TC TC TC CC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
34863750 TTTAAACACA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.00, C:0.51, G:0.00, T:0.49
Consensus pattern (2 bp):
TC
Found at i:34868649 original size:23 final size:23
Alignment explanation
Indices: 34868590--34868661 Score: 112
Period size: 23 Copynumber: 3.2 Consensus size: 23
34868580 ATAATAGAAC
34868590 TCTTTTGAGTTATTATGAACC-T
1 TCTTTTGAGTTATTATGAACCAT
*
34868612 TCAATTT-AGTTATTATGAACCAT
1 TC-TTTTGAGTTATTATGAACCAT
34868635 TCTTTTGAGTTATTATGAACCAT
1 TCTTTTGAGTTATTATGAACCAT
34868658 TCTT
1 TCTT
34868662 AATTAAAAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 5
0.87 0.04 0.10
Matches are distributed among these distances:
22 19 0.42
23 26 0.58
ACGTcount: A:0.26, C:0.14, G:0.11, T:0.49
Consensus pattern (23 bp):
TCTTTTGAGTTATTATGAACCAT
Found at i:34874814 original size:27 final size:26
Alignment explanation
Indices: 34874784--34874868 Score: 73
Period size: 27 Copynumber: 3.2 Consensus size: 26
34874774 CAATGAAATG
34874784 CACCAAAATACCACTATCACTAATTTA
1 CACCAAAATACCACTATCACTAA-TTA
** *
34874811 CACCAAGGTGCCACTATCACTAGATTA
1 CACCAAAATACCACTATCACTA-ATTA
* * *
34874838 CATC-GAATATCCACTGTCACTAAATTA
1 CACCAAAATA-CCACTATCACT-AATTA
34874865 CACC
1 CACC
34874869 TAGGTGCCCC
Statistics
Matches: 45, Mismatches: 10, Indels: 6
0.74 0.16 0.10
Matches are distributed among these distances:
26 1 0.02
27 42 0.93
28 2 0.04
ACGTcount: A:0.38, C:0.31, G:0.07, T:0.25
Consensus pattern (26 bp):
CACCAAAATACCACTATCACTAATTA
Found at i:34874876 original size:54 final size:54
Alignment explanation
Indices: 34874790--34874940 Score: 182
Period size: 54 Copynumber: 2.8 Consensus size: 54
34874780 AATGCACCAA
34874790 AATACCACTATCACTAATTTACACCAAGGTGCCACTATCACTAGA-TTACATCG
1 AATACCACTATCACTAATTTACACCAAGGTGCCACTATCACTAGAGTTACATCG
* * * * *
34874843 AATATCCACTGTCACTAAATTACACCTAGGTGCCCCTATCACT-GAGTTACGTCG
1 AATA-CCACTATCACTAATTTACACCAAGGTGCCACTATCACTAGAGTTACATCG
* * *
34874897 AGGTGCCACTATCACTAATTTGCACCGAA-GTGCCACTATCACTA
1 A-ATACCACTATCACTAATTTACACC-AAGGTGCCACTATCACTA
34874941 ATCATGCTGA
Statistics
Matches: 81, Mismatches: 12, Indels: 8
0.80 0.12 0.08
Matches are distributed among these distances:
53 6 0.07
54 73 0.90
55 2 0.02
ACGTcount: A:0.31, C:0.29, G:0.13, T:0.26
Consensus pattern (54 bp):
AATACCACTATCACTAATTTACACCAAGGTGCCACTATCACTAGAGTTACATCG
Found at i:34874884 original size:27 final size:27
Alignment explanation
Indices: 34874794--34874941 Score: 136
Period size: 27 Copynumber: 5.5 Consensus size: 27
34874784 CACCAAAATA
* *
34874794 CCACTATCACTAATTTACACCAAGGTG
1 CCACTATCACTAAATTACACCGAGGTG
* * * *
34874821 CCACTATCACTAGATTACATCGA-ATAT
1 CCACTATCACTAAATTACACCGAGGT-G
* *
34874848 CCACTGTCACTAAATTACACCTAGGTG
1 CCACTATCACTAAATTACACCGAGGTG
* * * **
34874875 CCCCTATCACTGAGTTACGTCGAGGTG
1 CCACTATCACTAAATTACACCGAGGTG
* * *
34874902 CCACTATCACTAATTTGCACCGAAGTG
1 CCACTATCACTAAATTACACCGAGGTG
34874929 CCACTATCACTAA
1 CCACTATCACTAA
34874942 TCATGCTGAA
Statistics
Matches: 93, Mismatches: 26, Indels: 4
0.76 0.21 0.03
Matches are distributed among these distances:
26 1 0.01
27 91 0.98
28 1 0.01
ACGTcount: A:0.30, C:0.30, G:0.14, T:0.26
Consensus pattern (27 bp):
CCACTATCACTAAATTACACCGAGGTG
Found at i:34884382 original size:35 final size:35
Alignment explanation
Indices: 34884324--34884489 Score: 118
Period size: 35 Copynumber: 4.5 Consensus size: 35
34884314 GTTTACACAA
* * * **
34884324 TGTCACCCCGAAAGACTTGTATATTGTTTACATGG
1 TGTCACCCCGAAGGACCTATATATCATTTACATGG
* *
34884359 TGTCTCCTCGAAGGACCTATATATCATTTACACTGTG
1 TGTCACCCCGAAGGACCTATATATCATTTACA-TG-G
*
34884396 TAAATGATATCACCCCGAAGAACCTATATA-CAATTTACATGG
1 ----TG---TCACCCCGAAGGACCTATATATC-ATTTACATGG
* **
34884438 TGTCACCCCGAAGGACCTATATATCGTTTACACAG
1 TGTCACCCCGAAGGACCTATATATCATTTACATGG
* *
34884473 TGTCTCCCTGAAGGACC
1 TGTCACCCCGAAGGACC
34884490 CGTAGATAAC
Statistics
Matches: 104, Mismatches: 16, Indels: 22
0.73 0.11 0.15
Matches are distributed among these distances:
35 67 0.64
36 3 0.03
37 1 0.01
38 2 0.02
41 2 0.02
42 1 0.01
43 3 0.03
44 25 0.24
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.30
Consensus pattern (35 bp):
TGTCACCCCGAAGGACCTATATATCATTTACATGG
Found at i:34886721 original size:29 final size:29
Alignment explanation
Indices: 34886661--34886756 Score: 70
Period size: 30 Copynumber: 3.2 Consensus size: 29
34886651 TATCCTTTCC
* * *
34886661 ACTTTTGGATATTTACAATTTTAGTCCTTCA
1 ACTTTT-GA-ATTTACAACTTTAGCCCATCA
*
34886692 AGTTTTTGAATTTAC-ACTTTAGCCCATCA
1 A-CTTTTGAATTTACAACTTTAGCCCATCA
* * *
34886721 ACTTTTGAATATCCACACTTTTACCCCATC-
1 ACTTTTGAATTTACA-AC-TTTAGCCCATCA
34886751 ACTTTT
1 ACTTTT
34886757 TACTTCTTTA
Statistics
Matches: 53, Mismatches: 8, Indels: 9
0.76 0.11 0.13
Matches are distributed among these distances:
28 10 0.19
29 12 0.23
30 14 0.26
31 13 0.25
32 4 0.08
ACGTcount: A:0.26, C:0.23, G:0.07, T:0.44
Consensus pattern (29 bp):
ACTTTTGAATTTACAACTTTAGCCCATCA
Found at i:34897171 original size:20 final size:20
Alignment explanation
Indices: 34897138--34897175 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
34897128 ACGTTAGTAA
34897138 TTAATAAATTTTTAAAAAAT
1 TTAATAAATTTTTAAAAAAT
34897158 TTAA-AAATTATTTAAAAA
1 TTAATAAATT-TTTAAAAA
34897176 TAAAAATATT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.58, C:0.00, G:0.00, T:0.42
Consensus pattern (20 bp):
TTAATAAATTTTTAAAAAAT
Found at i:34897185 original size:16 final size:16
Alignment explanation
Indices: 34897159--34897191 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
34897149 TTAAAAAATT
34897159 TAAAAATTATTTAAAAA
1 TAAAAATTA-TTAAAAA
34897176 TAAAAA-TATTAAAAA
1 TAAAAATTATTAAAAA
34897191 T
1 T
34897192 TAGAAAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
16 2 0.12
17 6 0.38
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (16 bp):
TAAAAATTATTAAAAA
Found at i:34897200 original size:26 final size:25
Alignment explanation
Indices: 34897152--34897203 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
34897142 TAAATTTTTA
***
34897152 AAAAATTTAAAAATTATTTAAAAAT
1 AAAAATTTAAAAATTAGAAAAAAAT
34897177 AAAAATATTAAAAATTAGAAAAAAAT
1 AAAAAT-TTAAAAATTAGAAAAAAAT
34897203 A
1 A
34897204 TTTTTTTAAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 6 0.26
26 17 0.74
ACGTcount: A:0.69, C:0.00, G:0.02, T:0.29
Consensus pattern (25 bp):
AAAAATTTAAAAATTAGAAAAAAAT
Found at i:34909880 original size:19 final size:19
Alignment explanation
Indices: 34909837--34909886 Score: 66
Period size: 19 Copynumber: 2.6 Consensus size: 19
34909827 ATGCATACAC
34909837 AATTCCACTAATCACACAT
1 AATTCCACTAATCACACAT
**
34909856 GGTTCCACTAATCA-ATCAT
1 AATTCCACTAATCACA-CAT
34909875 AATTCCACTAAT
1 AATTCCACTAAT
34909887 TAAACACCAT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
18 1 0.04
19 25 0.96
ACGTcount: A:0.38, C:0.28, G:0.04, T:0.30
Consensus pattern (19 bp):
AATTCCACTAATCACACAT
Done.