Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008670.1 Hibiscus syriacus cultivar Beakdansim tig00111678_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 969061
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.33
File 4 of 5
Found at i:681741 original size:107 final size:106
Alignment explanation
Indices: 681527--681757 Score: 302
Period size: 107 Copynumber: 2.2 Consensus size: 106
681517 ATCATTCCCT
* * * *
681527 TCACCAAGTAATCAA-ACATTATATTAGAATAAAGTGGAAATTAGTAGGTACACTAGACTTTGAA
1 TCACCAAGTAATTAATACACTATATTAGAATAAAGTGGAAATTAGTAGGTACACCAGACATTGAA
* * * * * *
681591 ATATAATATATTGTCATTTTCTAATCTATGTTCTTTAATTA
66 ATATAATACATTGGCATTTTCTAATCTATGCTATGTAAATA
** * *
681632 TCACCAAGTAATTAATACTACTATATTAGTGTAAAGTGGAAATTAGTAGGTATACCATACATTGA
1 TCACCAAGTAATTAATAC-ACTATATTAGAATAAAGTGGAAATTAGTAGGTACACCAGACATTGA
* *
681697 AATATAATACATTGGCATTTTCTCATCTGTGCTATGTAAATA
65 AATATAATACATTGGCATTTTCTAATCTATGCTATGTAAATA
681739 TCACCAAGTAATTAATACA
1 TCACCAAGTAATTAATACA
681758 TTGAAAAACA
Statistics
Matches: 108, Mismatches: 16, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
105 14 0.13
106 3 0.03
107 91 0.84
ACGTcount: A:0.39, C:0.13, G:0.12, T:0.36
Consensus pattern (106 bp):
TCACCAAGTAATTAATACACTATATTAGAATAAAGTGGAAATTAGTAGGTACACCAGACATTGAA
ATATAATACATTGGCATTTTCTAATCTATGCTATGTAAATA
Found at i:686392 original size:25 final size:25
Alignment explanation
Indices: 686332--686405 Score: 87
Period size: 25 Copynumber: 3.0 Consensus size: 25
686322 TCCCACATAG
* * *
686332 ATTTATCTCGAAAGACCGCGTA-AA
1 ATTTATCCCGAAGGACCACGTAGAA
*
686356 ATTTATCTCGAAGGACCACGTAGAA
1 ATTTATCCCGAAGGACCACGTAGAA
* *
686381 ATTTGTCCCGAAGGATCACGTAGAA
1 ATTTATCCCGAAGGACCACGTAGAA
686406 CTCTCGGCTC
Statistics
Matches: 44, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
24 20 0.45
25 24 0.55
ACGTcount: A:0.35, C:0.20, G:0.20, T:0.24
Consensus pattern (25 bp):
ATTTATCCCGAAGGACCACGTAGAA
Found at i:688857 original size:15 final size:15
Alignment explanation
Indices: 688837--688865 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
688827 GTTATATGAG
688837 TTATGTGATAAGAAA
1 TTATGTGATAAGAAA
688852 TTATGTGATAAGAA
1 TTATGTGATAAGAA
688866 GCTACGAGCC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.45, C:0.00, G:0.21, T:0.34
Consensus pattern (15 bp):
TTATGTGATAAGAAA
Found at i:689134 original size:18 final size:18
Alignment explanation
Indices: 689111--689160 Score: 73
Period size: 18 Copynumber: 2.8 Consensus size: 18
689101 TATGTGATAT
*
689111 GTGGTCCTTTGGGACATA
1 GTGGTCCTTCGGGACATA
689129 GTGGTCCTTCGGGACATA
1 GTGGTCCTTCGGGACATA
* *
689147 GTTGTCATTCGGGA
1 GTGGTCCTTCGGGA
689161 TAAATTTCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.16, C:0.18, G:0.34, T:0.32
Consensus pattern (18 bp):
GTGGTCCTTCGGGACATA
Found at i:694446 original size:15 final size:15
Alignment explanation
Indices: 694426--694476 Score: 57
Period size: 15 Copynumber: 3.3 Consensus size: 15
694416 AGTTTAACAT
694426 TTATTCACATAGAAC
1 TTATTCACATAGAAC
* * *
694441 TTATTCTCATAGTAT
1 TTATTCACATAGAAC
694456 TTCATTTCACATAGAAC
1 TT-A-TTCACATAGAAC
694473 TTAT
1 TTAT
694477 ATTCATAGTG
Statistics
Matches: 28, Mismatches: 6, Indels: 4
0.74 0.16 0.11
Matches are distributed among these distances:
15 15 0.54
16 2 0.07
17 11 0.39
ACGTcount: A:0.33, C:0.18, G:0.06, T:0.43
Consensus pattern (15 bp):
TTATTCACATAGAAC
Found at i:694467 original size:32 final size:32
Alignment explanation
Indices: 694429--694490 Score: 99
Period size: 32 Copynumber: 1.9 Consensus size: 32
694419 TTAACATTTA
694429 TTCACATAGAACTTAT-TCTCATAGTATTTCAT
1 TTCACATAGAACTTATAT-TCATAGTATTTCAT
*
694461 TTCACATAGAACTTATATTCATAGTGTTTC
1 TTCACATAGAACTTATATTCATAGTATTTC
694491 CCAATATTAT
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
32 27 0.96
33 1 0.04
ACGTcount: A:0.31, C:0.18, G:0.08, T:0.44
Consensus pattern (32 bp):
TTCACATAGAACTTATATTCATAGTATTTCAT
Found at i:694481 original size:17 final size:17
Alignment explanation
Indices: 694427--694481 Score: 53
Period size: 17 Copynumber: 3.4 Consensus size: 17
694417 GTTTAACATT
694427 TATTCACATAGAAC-T-
1 TATTCACATAGAACTTA
* * *
694442 TATTCTCATAGTATTTCA
1 TATTCACATAGAACTT-A
694460 T-TTCACATAGAACTTA
1 TATTCACATAGAACTTA
694476 TATTCA
1 TATTCA
694482 TAGTGTTTCC
Statistics
Matches: 30, Mismatches: 6, Indels: 6
0.71 0.14 0.14
Matches are distributed among these distances:
15 11 0.37
16 3 0.10
17 15 0.50
18 1 0.03
ACGTcount: A:0.35, C:0.18, G:0.05, T:0.42
Consensus pattern (17 bp):
TATTCACATAGAACTTA
Found at i:705297 original size:2 final size:2
Alignment explanation
Indices: 705290--705334 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
705280 AATTTAAAGA
705290 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
705332 AT A
1 AT A
705335 ATAACATATT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:705530 original size:114 final size:114
Alignment explanation
Indices: 705330--705539 Score: 312
Period size: 114 Copynumber: 1.8 Consensus size: 114
705320 ATATATATAT
* *
705330 ATATAATAACATATTTATTTATTTAGAAATATCAGAAATGACTTCTAGGTGCTTTAAGACAGCTC
1 ATATAATAACATATTTATTTATTTAAAAATATCAGAAAGGACTTCTAGGTGCTTTAAGACAGCTC
* **
705395 TTTCTTTTGATATTAAAAAATAAATAAATAATAATAATAAATTATTTTA
66 TTTCCTTCAATATTAAAAAATAAATAAATAATAATAATAAATTATTTTA
* * * * * **
705444 ATATAGTAAGATATTTATTTATTTAAAAATATTAGAAAGGGCTTCTAGTTGCTTTAAGTTAGCTC
1 ATATAATAACATATTTATTTATTTAAAAATATCAGAAAGGACTTCTAGGTGCTTTAAGACAGCTC
705509 TTTCCTTCAATATTAAAAAATAAATAAATAA
66 TTTCCTTCAATATTAAAAAATAAATAAATAA
705540 CTAAAACATT
Statistics
Matches: 84, Mismatches: 12, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
114 84 1.00
ACGTcount: A:0.43, C:0.08, G:0.09, T:0.40
Consensus pattern (114 bp):
ATATAATAACATATTTATTTATTTAAAAATATCAGAAAGGACTTCTAGGTGCTTTAAGACAGCTC
TTTCCTTCAATATTAAAAAATAAATAAATAATAATAATAAATTATTTTA
Found at i:705561 original size:114 final size:114
Alignment explanation
Indices: 705330--705567 Score: 289
Period size: 114 Copynumber: 2.1 Consensus size: 114
705320 ATATATATAT
* *
705330 ATATAATAACATATTTATTTATTTAGAAATATCAGAAATGACTTCTAGGTGCTTTAAGACAGCTC
1 ATATAATAACATATTTATTTATTTAAAAATATCAGAAAGGACTTCTAGGTGCTTTAAGACAGCTC
* ** * **
705395 TTTCTTTTGATATTAAAAAATAAATAAATAATAATAATAAATTATTTTA
66 TTTCCTTCAATATTAAAAAATAAATAAATAATAATAACAAATTATTAAA
* * * * * **
705444 ATATAGTAAGATATTTATTTATTTAAAAATATTAGAAAGGGCTTCTAGTTGCTTTAAGTTAGCTC
1 ATATAATAACATATTTATTTATTTAAAAATATCAGAAAGGACTTCTAGGTGCTTTAAGACAGCTC
** *
705509 TTTCCTTCAATATTAAAAAATAAATAAATAACTAA-AACATTTTCTTAAA
66 TTTCCTTCAATATTAAAAAATAAATAAATAA-TAATAACAAATTATTAAA
705558 ATATTAATAA
1 ATA-TAATAA
705568 AATAAAATTT
Statistics
Matches: 103, Mismatches: 19, Indels: 3
0.82 0.15 0.02
Matches are distributed among these distances:
114 95 0.92
115 8 0.08
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (114 bp):
ATATAATAACATATTTATTTATTTAAAAATATCAGAAAGGACTTCTAGGTGCTTTAAGACAGCTC
TTTCCTTCAATATTAAAAAATAAATAAATAATAATAACAAATTATTAAA
Found at i:705774 original size:15 final size:16
Alignment explanation
Indices: 705754--705790 Score: 58
Period size: 16 Copynumber: 2.4 Consensus size: 16
705744 AAATGAAGAA
*
705754 ATTAAAA-GCAATTAT
1 ATTAAAATGCAAATAT
705769 ATTAAAATGCAAATAT
1 ATTAAAATGCAAATAT
705785 ATTAAA
1 ATTAAA
705791 TGAAAAATAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
15 7 0.35
16 13 0.65
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.32
Consensus pattern (16 bp):
ATTAAAATGCAAATAT
Found at i:707031 original size:3 final size:3
Alignment explanation
Indices: 707018--707069 Score: 86
Period size: 3 Copynumber: 16.7 Consensus size: 3
707008 TATATTTATT
707018 TAA TAAA TAA TAA TAA TAA TAA TATA TAA TAA TAA TAA TAA TAA TAA
1 TAA T-AA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA
707065 TAA TA
1 TAA TA
707070 TTTATGAAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
3 41 0.87
4 6 0.13
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
TAA
Found at i:707260 original size:46 final size:46
Alignment explanation
Indices: 707193--708048 Score: 1471
Period size: 46 Copynumber: 18.8 Consensus size: 46
707183 GACGGAAATG
*
707193 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
*
707239 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
707285 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
*
707331 TTTGAAAACATCATGCACTGAAGGACTTACAGATGACCCGAAGGTT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
** *
707377 TTTGAAAACATCATGCACTGAAGGATTTACAGATGATCCGAAGGTT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
707423 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
* * *
707469 TTTGAAAACATCATGCACTGAAGGACATACAGAGGACCCGAAGGTT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
*
707515 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCAAAGG-T
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
707560 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
707606 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-T
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
*
707651 TTTGAAAACATCATGCACTGAAGGGCTTACAGATAACCCGAAGG-T
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
707696 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG-T
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
707741 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
*
707787 TATGAAAACATCAAT-CACTGAAGGGCTTACAGATGACCCGAAGGTT
1 TTTGAAAACATC-ATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
707833 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
* * *
707879 TTTGAAAACATTATGCACTGAAGGGCTTACAGATGAACCAAAGGTT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
* *
707925 TTTGAAAACATCATCCACTGAAGTGCTTACAGATGACCCGAAGG-T
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
*
707970 TTTGAAAACATCATGCACTGAAGGG---GCAGATGACCCGAAGG-T
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
708012 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGAC
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGAC
708049 GCACTGAAAG
Statistics
Matches: 772, Mismatches: 31, Indels: 15
0.94 0.04 0.02
Matches are distributed among these distances:
42 41 0.05
45 211 0.27
46 518 0.67
47 2 0.00
ACGTcount: A:0.34, C:0.19, G:0.23, T:0.23
Consensus pattern (46 bp):
TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGTT
Found at i:708053 original size:23 final size:23
Alignment explanation
Indices: 708026--708071 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
708016 AAAACATCAT
*
708026 GCACTGAAGGGCTTACAGATGAC
1 GCACTGAAAGGCTTACAGATGAC
708049 GCACTGAAAGGCTTACAGATGAC
1 GCACTGAAAGGCTTACAGATGAC
708072 CCGAAGGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.33, C:0.22, G:0.28, T:0.17
Consensus pattern (23 bp):
GCACTGAAAGGCTTACAGATGAC
Found at i:708240 original size:45 final size:46
Alignment explanation
Indices: 708049--708297 Score: 412
Period size: 46 Copynumber: 5.5 Consensus size: 46
708039 TACAGATGAC
*
708049 GCACTGAAAGGCTTACAGATGACCCGAAGGTTTTTGAAAACATCAT
1 GCACTGAAGGGCTTACAGATGACCCGAAGGTTTTTGAAAACATCAT
708095 GCACTGAAGGGCTTACAGATGACCCGAAGGTTTTTGAAAACATCAT
1 GCACTGAAGGGCTTACAGATGACCCGAAGGTTTTTGAAAACATCAT
* * *
708141 GCACTGAAGAGCTTATAGATGACGCGAAGGTTTTTGAAAACATCAT
1 GCACTGAAGGGCTTACAGATGACCCGAAGGTTTTTGAAAACATCAT
*
708187 ACACTGAAGGGCTTACAGATGACCCGAAGG-TTTTGAAAACATCAT
1 GCACTGAAGGGCTTACAGATGACCCGAAGGTTTTTGAAAACATCAT
* * *
708232 GCATTGAAGGGCTTATAGATGACCTGAAGG-TTTTGAAAACATCAT
1 GCACTGAAGGGCTTACAGATGACCCGAAGGTTTTTGAAAACATCAT
708277 GCACTGAAGGGCTTACAGATG
1 GCACTGAAGGGCTTACAGATG
708298 TTGGAAATAG
Statistics
Matches: 189, Mismatches: 14, Indels: 1
0.93 0.07 0.00
Matches are distributed among these distances:
45 75 0.40
46 114 0.60
ACGTcount: A:0.34, C:0.18, G:0.24, T:0.24
Consensus pattern (46 bp):
GCACTGAAGGGCTTACAGATGACCCGAAGGTTTTTGAAAACATCAT
Found at i:708242 original size:248 final size:248
Alignment explanation
Indices: 707802--708297 Score: 852
Period size: 248 Copynumber: 2.0 Consensus size: 248
707792 AAACATCAAT
*
707802 CACTGAAGGGCTTACAGATGACCCGAAGGTTTTTGAAAACATCATGCACTGAAGGGCTTACAGAT
1 CACTGAAAGGCTTACAGATGACCCGAAGGTTTTTGAAAACATCATGCACTGAAGGGCTTACAGAT
* *
707867 GACCCGAAGGTTTTTGAAAACATTATGCACTGAAGGGCTTACAGATGAACCAAAGGTTTTTGAAA
66 GACCCGAAGGTTTTTGAAAACATCATGCACTGAAGAGCTTACAGATGAACCAAAGGTTTTTGAAA
* *
707932 ACATCATCCACTGAAGTGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGGC
131 ACATCATACACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAA-GGGC
707997 -AGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACG
195 TAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACG
708050 CACTGAAAGGCTTACAGATGACCCGAAGGTTTTTGAAAACATCATGCACTGAAGGGCTTACAGAT
1 CACTGAAAGGCTTACAGATGACCCGAAGGTTTTTGAAAACATCATGCACTGAAGGGCTTACAGAT
* *
708115 GACCCGAAGGTTTTTGAAAACATCATGCACTGAAGAGCTTATAGATG-ACGCGAAGGTTTTTGAA
66 GACCCGAAGGTTTTTGAAAACATCATGCACTGAAGAGCTTACAGATGAAC-CAAAGGTTTTTGAA
*
708179 AACATCATACACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCATTGAAGGGC
130 AACATCATACACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGC
*
708244 TTATAGATGACCTGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATG
195 ---TAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATG
708298 TTGGAAATAG
Statistics
Matches: 234, Mismatches: 9, Indels: 7
0.94 0.04 0.03
Matches are distributed among these distances:
247 6 0.03
248 179 0.76
251 49 0.21
ACGTcount: A:0.34, C:0.19, G:0.24, T:0.24
Consensus pattern (248 bp):
CACTGAAAGGCTTACAGATGACCCGAAGGTTTTTGAAAACATCATGCACTGAAGGGCTTACAGAT
GACCCGAAGGTTTTTGAAAACATCATGCACTGAAGAGCTTACAGATGAACCAAAGGTTTTTGAAA
ACATCATACACTGAAGGGCTTACAGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCT
AGATGACCCGAAGGTTTTGAAAACATCATGCACTGAAGGGCTTACAGATGACG
Found at i:709015 original size:22 final size:22
Alignment explanation
Indices: 708949--709025 Score: 59
Period size: 22 Copynumber: 3.5 Consensus size: 22
708939 ATTAAAGCTT
* *
708949 TCATATTTGAA-AAGAGAATCTA
1 TCATCTTTGAAGAA-AGAGTCTA
* * * * *
708971 CCATCTTTAAAGAGATAGGCTA
1 TCATCTTTGAAGAAAGAGTCTA
708993 TCATCTTTGAAGAAAGAGTCTA
1 TCATCTTTGAAGAAAGAGTCTA
709015 TTC-TCTTTGAA
1 -TCATCTTTGAA
709026 AAGTGTAGAT
Statistics
Matches: 41, Mismatches: 12, Indels: 4
0.72 0.21 0.07
Matches are distributed among these distances:
22 38 0.93
23 3 0.07
ACGTcount: A:0.36, C:0.14, G:0.16, T:0.34
Consensus pattern (22 bp):
TCATCTTTGAAGAAAGAGTCTA
Found at i:716291 original size:15 final size:14
Alignment explanation
Indices: 716266--716297 Score: 55
Period size: 15 Copynumber: 2.2 Consensus size: 14
716256 TAAAAAATGT
716266 AAATGCAAAATGCA
1 AAATGCAAAATGCA
716280 AAATGCATAAATGCA
1 AAATGCA-AAATGCA
716295 AAA
1 AAA
716298 ATGTAAATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.59, C:0.12, G:0.12, T:0.16
Consensus pattern (14 bp):
AAATGCAAAATGCA
Found at i:716300 original size:8 final size:7
Alignment explanation
Indices: 716266--716297 Score: 55
Period size: 7 Copynumber: 4.4 Consensus size: 7
716256 TAAAAAATGT
716266 AAATGCA
1 AAATGCA
716273 AAATGCA
1 AAATGCA
716280 AAATGCA
1 AAATGCA
716287 TAAATGCA
1 -AAATGCA
716295 AAA
1 AAA
716298 ATGTAAATGT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
7 17 0.71
8 7 0.29
ACGTcount: A:0.59, C:0.12, G:0.12, T:0.16
Consensus pattern (7 bp):
AAATGCA
Found at i:718812 original size:21 final size:19
Alignment explanation
Indices: 718788--718827 Score: 53
Period size: 21 Copynumber: 2.0 Consensus size: 19
718778 CTAATACTTG
718788 AAAATAAAATAACAATATAAA
1 AAAATAAAAT-AC-ATATAAA
*
718809 AAAATAATATACATATAAA
1 AAAATAAAATACATATAAA
718828 TATTATGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 7 0.39
20 2 0.11
21 9 0.50
ACGTcount: A:0.72, C:0.05, G:0.00, T:0.23
Consensus pattern (19 bp):
AAAATAAAATACATATAAA
Found at i:718853 original size:15 final size:14
Alignment explanation
Indices: 718793--718854 Score: 54
Period size: 15 Copynumber: 4.4 Consensus size: 14
718783 ACTTGAAAAT
*
718793 AAAATAACAATATA
1 AAAATAATAATATA
718807 AAAA-AATAATATA
1 AAAATAATAATATA
* * * *
718820 CATATAAATATTATG
1 AAAAT-AATAATATA
718835 AAAATAATATATATA
1 AAAATAATA-ATATA
718850 AAAAT
1 AAAAT
718855 TTTGAAAAGA
Statistics
Matches: 36, Mismatches: 9, Indels: 5
0.72 0.18 0.10
Matches are distributed among these distances:
13 10 0.28
14 8 0.22
15 18 0.50
ACGTcount: A:0.66, C:0.03, G:0.02, T:0.29
Consensus pattern (14 bp):
AAAATAATAATATA
Found at i:718860 original size:24 final size:25
Alignment explanation
Indices: 718809--718862 Score: 74
Period size: 24 Copynumber: 2.2 Consensus size: 25
718799 ACAATATAAA
*
718809 AAAATAATATACATATAAATATTATG
1 AAAATAATATA-ATATAAAAATTATG
*
718835 AAAATAATAT-ATATAAAAATTTTG
1 AAAATAATATAATATAAAAATTATG
718859 AAAA
1 AAAA
718863 GAAAGAATTA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 16 0.62
26 10 0.38
ACGTcount: A:0.61, C:0.02, G:0.04, T:0.33
Consensus pattern (25 bp):
AAAATAATATAATATAAAAATTATG
Found at i:719629 original size:115 final size:115
Alignment explanation
Indices: 719395--719629 Score: 240
Period size: 115 Copynumber: 2.0 Consensus size: 115
719385 TAACATATTT
* * * * * * ***
719395 ATTTATTTAGAAATATCAAAAAATGGTTTCTAGATGCTTTAAGACAGCTCTTTCTTTTGGTATTA
1 ATTTATTTAAAAATATCAAAAAAGGGCTTCTAGATGCTTTAACACAACTCTTTCCTTCAATATTA
* ** * * **
719460 AAAAATAAATAAATAATAATAATAAATTATTTTAATATAGTAAGATATTT
66 AAAAATAAATAAATAATAATAACAAATTATTAAAATATAATAAAATATAA
* * *
719510 ATTTATTTAAAAATATTAGAAAAGGGCTTCTAGTTGCTTTAACACAACTCTTTCCTTCAATATTA
1 ATTTATTTAAAAATATCAAAAAAGGGCTTCTAGATGCTTTAACACAACTCTTTCCTTCAATATTA
** *
719575 AAAAATAAATAAATAACTAA-AACATTTTCTTAAAATGATAATAAAATA-AA
66 AAAAATAAATAAATAA-TAATAACAAATTATTAAAAT-ATAATAAAATATAA
719625 ATTTA
1 ATTTA
719630 AACATAAATA
Statistics
Matches: 96, Mismatches: 22, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
115 84 0.88
116 12 0.12
ACGTcount: A:0.46, C:0.09, G:0.08, T:0.38
Consensus pattern (115 bp):
ATTTATTTAAAAATATCAAAAAAGGGCTTCTAGATGCTTTAACACAACTCTTTCCTTCAATATTA
AAAAATAAATAAATAATAATAACAAATTATTAAAATATAATAAAATATAA
Found at i:719851 original size:17 final size:17
Alignment explanation
Indices: 719816--719863 Score: 57
Period size: 16 Copynumber: 3.0 Consensus size: 17
719806 AATGAAAGAA
*
719816 ATTAAAA-GCAATA-AT
1 ATTAAAATGCAAAATAT
719831 ATTAAAATGCAAAATAT
1 ATTAAAATGCAAAATAT
*
719848 ATT-AAATGAAAAATAT
1 ATTAAAATGCAAAATAT
719864 CAAACTGTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
15 7 0.24
16 17 0.59
17 5 0.17
ACGTcount: A:0.60, C:0.04, G:0.06, T:0.29
Consensus pattern (17 bp):
ATTAAAATGCAAAATAT
Found at i:721128 original size:27 final size:28
Alignment explanation
Indices: 721098--721163 Score: 84
Period size: 30 Copynumber: 2.4 Consensus size: 28
721088 ATATAATTTG
721098 TAATATATATAT-TTAT-TTAATAATAAA
1 TAATATATATATATTATATTAATAAT-AA
721125 TAATAATAATATATATTATATTAATAATAA
1 TAAT-AT-ATATATATTATATTAATAATAA
721155 TAAT-TATAT
1 TAATATATAT
721164 TTATGAAAAA
Statistics
Matches: 35, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
27 8 0.23
28 3 0.09
29 6 0.17
30 10 0.29
31 8 0.23
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (28 bp):
TAATATATATATATTATATTAATAATAA
Found at i:721140 original size:31 final size:29
Alignment explanation
Indices: 721098--721163 Score: 89
Period size: 31 Copynumber: 2.2 Consensus size: 29
721088 ATATAATTTG
721098 TAATATATATATT-TATTTAATAATAAATAA
1 TAATATATATATTATA-TTAATAAT-AATAA
721128 TAATAATATATATTATATTAATAATAATAA
1 TAAT-ATATATATTATATTAATAATAATAA
*
721158 TTATAT
1 TAATAT
721164 TTATGAAAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
29 2 0.06
30 12 0.36
31 17 0.52
32 2 0.06
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (29 bp):
TAATATATATATTATATTAATAATAATAA
Found at i:721151 original size:18 final size:17
Alignment explanation
Indices: 721115--721164 Score: 57
Period size: 18 Copynumber: 2.9 Consensus size: 17
721105 TATATTTATT
* *
721115 TAATAATA-AATAATAA
1 TAATAATATTATATTAA
721131 TAATATATATTATATTAA
1 TAATA-ATATTATATTAA
721149 TAATAATAATTATATT
1 TAATAAT-ATTATATT
721165 TATGAAAAAA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
16 5 0.17
17 5 0.17
18 19 0.66
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (17 bp):
TAATAATATTATATTAA
Found at i:723429 original size:61 final size:61
Alignment explanation
Indices: 723311--723429 Score: 150
Period size: 60 Copynumber: 2.0 Consensus size: 61
723301 GTTTGTGATG
* * * * *
723311 AAATTAGAATATTCGAAAAGTTTGAGAACCAATTTAGAATGAGAGTTATAATTTAAAAATA
1 AAATTAAAATATTCGAAAAGTTTGAGAACCAATTGAGAATAAGAATCATAATTTAAAAATA
* * * *
723372 AAATTAAAATATTC-AAAAGTTTGAGTACTAATTGAGAATAATAATCATAATTTTAAAA
1 AAATTAAAATATTCGAAAAGTTTGAGAACCAATTGAGAATAAGAATCATAATTTAAAAA
723430 GAATTTTATC
Statistics
Matches: 49, Mismatches: 9, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
60 36 0.73
61 13 0.27
ACGTcount: A:0.50, C:0.05, G:0.12, T:0.33
Consensus pattern (61 bp):
AAATTAAAATATTCGAAAAGTTTGAGAACCAATTGAGAATAAGAATCATAATTTAAAAATA
Found at i:730710 original size:13 final size:13
Alignment explanation
Indices: 730689--730722 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
730679 TTCCATTAGG
*
730689 TTAATATTTATTA
1 TTAAGATTTATTA
730702 TTAAGATTTATTA
1 TTAAGATTTATTA
*
730715 ATAAGATT
1 TTAAGATT
730723 ATATATTTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (13 bp):
TTAAGATTTATTA
Found at i:733020 original size:22 final size:21
Alignment explanation
Indices: 732973--733020 Score: 51
Period size: 22 Copynumber: 2.2 Consensus size: 21
732963 TTCAGCTGTT
* * *
732973 ATAACTCCGAAATTATATCAT
1 ATAACCCCGAAATTAAATCAA
*
732994 GTAACCCCTGAAATTAAATCAA
1 ATAACCCC-GAAATTAAATCAA
733016 ATAAC
1 ATAAC
733021 TCATGTAACT
Statistics
Matches: 21, Mismatches: 5, Indels: 1
0.78 0.19 0.04
Matches are distributed among these distances:
21 6 0.29
22 15 0.71
ACGTcount: A:0.46, C:0.21, G:0.06, T:0.27
Consensus pattern (21 bp):
ATAACCCCGAAATTAAATCAA
Found at i:742766 original size:19 final size:19
Alignment explanation
Indices: 742742--742778 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
742732 GTTAAATATT
742742 AATGAGAAGTGGTTTGATG
1 AATGAGAAGTGGTTTGATG
742761 AATGAGAAGTGGTTTGAT
1 AATGAGAAGTGGTTTGAT
742779 TGACATCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.32, C:0.00, G:0.35, T:0.32
Consensus pattern (19 bp):
AATGAGAAGTGGTTTGATG
Found at i:751672 original size:52 final size:52
Alignment explanation
Indices: 751575--751673 Score: 128
Period size: 52 Copynumber: 1.9 Consensus size: 52
751565 CTAAAATTCA
* * *
751575 AATTTTCTTCGATTAGTCATCTATTTTATTAATGGTGCTCACCTGAATTATG
1 AATTTTCTTCGATTAGTCACCTATATTATTAATGATGCTCACCTGAATTATG
* * *
751627 AATTTTCTTCGATTA-TGACCTATATTATTGATGATGTTCATCCTGAA
1 AATTTTCTTCGATTAGTCACCTATATTATTAATGATGCTCA-CCTGAA
751674 ATTTTATTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
51 19 0.47
52 21 0.52
ACGTcount: A:0.26, C:0.15, G:0.13, T:0.45
Consensus pattern (52 bp):
AATTTTCTTCGATTAGTCACCTATATTATTAATGATGCTCACCTGAATTATG
Found at i:755276 original size:4 final size:4
Alignment explanation
Indices: 755267--755301 Score: 52
Period size: 4 Copynumber: 8.8 Consensus size: 4
755257 CAATGGTATA
* *
755267 ATAC ATAC ATAC ATAC ATAC GTAC GTAC ATAC ATA
1 ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATAC ATA
755302 TGTTTTTTCA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 29 1.00
ACGTcount: A:0.46, C:0.23, G:0.06, T:0.26
Consensus pattern (4 bp):
ATAC
Found at i:759241 original size:33 final size:32
Alignment explanation
Indices: 759191--759252 Score: 97
Period size: 33 Copynumber: 1.9 Consensus size: 32
759181 TTCCTACCTC
* *
759191 TTCTTCATACTTCCTTATTTTTCTTCTCATCT
1 TTCTTCATAATTCCTTATTCTTCTTCTCATCT
759223 TTCTTCATTAATTCCTTATTCTTCTTCTCA
1 TTCTTCA-TAATTCCTTATTCTTCTTCTCA
759253 CAACCAAAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
32 7 0.26
33 20 0.74
ACGTcount: A:0.15, C:0.27, G:0.00, T:0.58
Consensus pattern (32 bp):
TTCTTCATAATTCCTTATTCTTCTTCTCATCT
Found at i:765877 original size:20 final size:20
Alignment explanation
Indices: 765847--765891 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
765837 GTTCGTGCAT
*
765847 TAAATCATTTGTTGAAGCCA
1 TAAATCATTTGTCGAAGCCA
765867 TGAAATC-TTTGTCGAAGCCA
1 T-AAATCATTTGTCGAAGCCA
765887 TAAAT
1 TAAAT
765892 TCTTATAGAG
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 4 0.17
20 14 0.61
21 5 0.22
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.33
Consensus pattern (20 bp):
TAAATCATTTGTCGAAGCCA
Found at i:768083 original size:175 final size:174
Alignment explanation
Indices: 767792--768117 Score: 589
Period size: 175 Copynumber: 1.9 Consensus size: 174
767782 CCTATCAATT
767792 AAGTATTATCCCTTTTAGTCGCTTAAAACCCTCTCCTTATCTCTAAGACAGGTTAGAACCTCACA
1 AAGTATTATCCCTTTTAGTCGCTTAAAACCCTCTCCTTATCTCTAAGACAGGTTAGAACCTCACA
*
767857 ATCCTGGATTAGTTCCCTTATTCACGTAGATCTAACCTAACTCTCTCGATATTAGGTATCAACTC
66 ATCCTGAATTAGTTCCCTTATTCACGTAGATCTAACCTAACTCTCTCGATATTAGGTATCAACTC
*
767922 CTATAAAATGACTATCTCTTAACAACTCATGGTGTGATATCGAAG
131 CTAT-AAACGACTATCTCTTAACAACTCATGGTGTGATATCGAAG
* * *
767967 AAGTATTATCCTTTTTAGTCGCTTAAAACCCTCTCCTTATCTCTAAGGCATGTTAGAACCTCACA
1 AAGTATTATCCCTTTTAGTCGCTTAAAACCCTCTCCTTATCTCTAAGACAGGTTAGAACCTCACA
768032 ATCCTGAATTAGTTCCCTTATTCACGTAGATCTAACCTAACTCTCTCGATATTAGGTATCAACTC
66 ATCCTGAATTAGTTCCCTTATTCACGTAGATCTAACCTAACTCTCTCGATATTAGGTATCAACTC
*
768097 CTATAAACGGCTATCTCTTAA
131 CTATAAACGACTATCTCTTAA
768118 AGACTAGGAA
Statistics
Matches: 145, Mismatches: 6, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
174 15 0.10
175 130 0.90
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (174 bp):
AAGTATTATCCCTTTTAGTCGCTTAAAACCCTCTCCTTATCTCTAAGACAGGTTAGAACCTCACA
ATCCTGAATTAGTTCCCTTATTCACGTAGATCTAACCTAACTCTCTCGATATTAGGTATCAACTC
CTATAAACGACTATCTCTTAACAACTCATGGTGTGATATCGAAG
Found at i:768661 original size:22 final size:21
Alignment explanation
Indices: 768635--768675 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
768625 GCTGTGGAAT
768635 TGATGGTCTTGATGGATGAAGA
1 TGATGGTCTTGAT-GATGAAGA
*
768657 TGATGGTGTTGATGATGAA
1 TGATGGTCTTGATGATGAA
768676 ATAGAGATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.27, C:0.02, G:0.37, T:0.34
Consensus pattern (21 bp):
TGATGGTCTTGATGATGAAGA
Found at i:772413 original size:26 final size:27
Alignment explanation
Indices: 772375--772425 Score: 70
Period size: 26 Copynumber: 1.9 Consensus size: 27
772365 TTTTGAATTT
*
772375 ATTTTTCTTTTCTTTTAT-TCTTTTTGA
1 ATTTTTCTCTTCTTTT-TGTCTTTTTGA
772402 ATTTTT-TCTTCTTTTTGTCTTTTT
1 ATTTTTCTCTTCTTTTTGTCTTTTT
772426 CTTTCTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 1 0.05
26 15 0.68
27 6 0.27
ACGTcount: A:0.08, C:0.12, G:0.04, T:0.76
Consensus pattern (27 bp):
ATTTTTCTCTTCTTTTTGTCTTTTTGA
Found at i:772701 original size:22 final size:21
Alignment explanation
Indices: 772675--772718 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
772665 AAAATGATTA
*
772675 ATAAAGGAAGATTAATGAAATG
1 ATAAAGGAA-ATGAATGAAATG
*
772697 ATAAAGGTAATGAATGAAATG
1 ATAAAGGAAATGAATGAAATG
772718 A
1 A
772719 AATAAATAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 12 0.60
22 8 0.40
ACGTcount: A:0.55, C:0.00, G:0.23, T:0.23
Consensus pattern (21 bp):
ATAAAGGAAATGAATGAAATG
Found at i:772792 original size:23 final size:24
Alignment explanation
Indices: 772758--772807 Score: 93
Period size: 23 Copynumber: 2.1 Consensus size: 24
772748 ATTGATAGTC
772758 TTGATGGATGAAATTGAGATGGTG
1 TTGATGGATGAAATTGAGATGGTG
772782 TTGAT-GATGAAATTGAGATGGTG
1 TTGATGGATGAAATTGAGATGGTG
772805 TTG
1 TTG
772808 TTGTTGTATC
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 21 0.81
24 5 0.19
ACGTcount: A:0.28, C:0.00, G:0.36, T:0.36
Consensus pattern (24 bp):
TTGATGGATGAAATTGAGATGGTG
Found at i:773191 original size:19 final size:20
Alignment explanation
Indices: 773144--773192 Score: 64
Period size: 19 Copynumber: 2.5 Consensus size: 20
773134 GAAACCCCTT
**
773144 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTAAA
773164 TGAAAATACATGA-TTTAAA
1 TGAAAATACATGATTTTAAA
*
773183 TGAAGATACA
1 TGAAAATACA
773193 AGCTATTGGC
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
19 13 0.50
20 13 0.50
ACGTcount: A:0.47, C:0.06, G:0.14, T:0.33
Consensus pattern (20 bp):
TGAAAATACATGATTTTAAA
Found at i:776538 original size:10 final size:10
Alignment explanation
Indices: 776498--776556 Score: 50
Period size: 11 Copynumber: 5.9 Consensus size: 10
776488 TTTGAATGTC
*
776498 TTTTCTTTTC
1 TTTTCTTTTT
776508 TTTTC--TTT
1 TTTTCTTTTT
**
776516 TTTTCTGAATT
1 TTTTCT-TTTT
776527 TTTTCTTCTTT
1 TTTTCTT-TTT
776538 TTTTCTTTTT
1 TTTTCTTTTT
*
776548 CTTTCTTTT
1 TTTTCTTTT
776557 GCACTCTAAT
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
8 7 0.17
10 16 0.40
11 17 0.43
ACGTcount: A:0.03, C:0.15, G:0.02, T:0.80
Consensus pattern (10 bp):
TTTTCTTTTT
Found at i:776539 original size:11 final size:11
Alignment explanation
Indices: 776500--776554 Score: 51
Period size: 10 Copynumber: 5.2 Consensus size: 11
776490 TGAATGTCTT
*
776500 TTCTTTTCTT-
1 TTCTTTTTTTC
776510 TTCTTTTTTTC
1 TTCTTTTTTTC
***
776521 TGAATTTTTTC
1 TTCTTTTTTTC
776532 TTCTTTTTTTC
1 TTCTTTTTTTC
*
776543 TT-TTTCTTTC
1 TTCTTTTTTTC
776553 TT
1 TT
776555 TTGCACTCTA
Statistics
Matches: 36, Mismatches: 8, Indels: 2
0.78 0.17 0.04
Matches are distributed among these distances:
10 18 0.50
11 18 0.50
ACGTcount: A:0.04, C:0.16, G:0.02, T:0.78
Consensus pattern (11 bp):
TTCTTTTTTTC
Found at i:780634 original size:19 final size:19
Alignment explanation
Indices: 780612--780671 Score: 59
Period size: 19 Copynumber: 3.1 Consensus size: 19
780602 CTTTTTGAAT
780612 TTCTTTTTCTTTTTTTTTC
1 TTCTTTTTCTTTTTTTTTC
** *
780631 TTC-TTTTCTGAATTTTTTA
1 TTCTTTTTCT-TTTTTTTTC
*
780650 TTCTTTTATCTTTTTCTTTC
1 TTCTTTT-TCTTTTTTTTTC
780670 TT
1 TT
780672 TTTGCACTCT
Statistics
Matches: 31, Mismatches: 7, Indels: 5
0.72 0.16 0.12
Matches are distributed among these distances:
18 6 0.19
19 12 0.39
20 10 0.32
21 3 0.10
ACGTcount: A:0.07, C:0.15, G:0.02, T:0.77
Consensus pattern (19 bp):
TTCTTTTTCTTTTTTTTTC
Found at i:780644 original size:32 final size:30
Alignment explanation
Indices: 780597--780656 Score: 86
Period size: 32 Copynumber: 1.9 Consensus size: 30
780587 CCTTGCTTGC
780597 TTTCTCTTTTTGAATTTCTTT-TTCTTTTTT
1 TTTCTCTTTTTGAATTT-TTTATTCTTTTTT
780627 TTTCTTCTTTTCTGAATTTTTTATTCTTTT
1 TTTC-TCTTTT-TGAATTTTTTATTCTTTT
780657 ATCTTTTTCT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
30 4 0.15
31 9 0.33
32 14 0.52
ACGTcount: A:0.08, C:0.13, G:0.03, T:0.75
Consensus pattern (30 bp):
TTTCTCTTTTTGAATTTTTTATTCTTTTTT
Found at i:780667 original size:32 final size:30
Alignment explanation
Indices: 780596--780668 Score: 85
Period size: 32 Copynumber: 2.3 Consensus size: 30
780586 TCCTTGCTTG
*
780596 CTTTCTCTTTTTGAATTTCTTTTTCTTTTT
1 CTTTTTCTTTTTGAATTTCTTTTTCTTTTT
*
780626 TTTTCTTCTTTTCTGAATTT-TTTATTCTTTTAT
1 CTTT-TTCTTTT-TGAATTTCTTT-TTCTTTT-T
780659 CTTTTTCTTT
1 CTTTTTCTTT
780669 CTTTTTGCAC
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
30 3 0.08
31 9 0.25
32 20 0.56
33 4 0.11
ACGTcount: A:0.08, C:0.15, G:0.03, T:0.74
Consensus pattern (30 bp):
CTTTTTCTTTTTGAATTTCTTTTTCTTTTT
Found at i:780949 original size:21 final size:21
Alignment explanation
Indices: 780925--780964 Score: 64
Period size: 21 Copynumber: 1.9 Consensus size: 21
780915 AAGGAAGATT
780925 AATGAAATGATAA-AAATAAGG
1 AATGAAATGA-AATAAATAAGG
780946 AATGAAATGAAATAAATAA
1 AATGAAATGAAATAAATAA
780965 ATGATAGAGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.65, C:0.00, G:0.15, T:0.20
Consensus pattern (21 bp):
AATGAAATGAAATAAATAAGG
Found at i:781013 original size:22 final size:21
Alignment explanation
Indices: 780987--781027 Score: 64
Period size: 22 Copynumber: 1.9 Consensus size: 21
780977 GCTACAGAAT
780987 TGATGGTCTTGATGGATGAAGA
1 TGATGGTCTTGAT-GATGAAGA
*
781009 TGATGGTGTTGATGATGAA
1 TGATGGTCTTGATGATGAA
781028 ATGGAGATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 6 0.33
22 12 0.67
ACGTcount: A:0.27, C:0.02, G:0.37, T:0.34
Consensus pattern (21 bp):
TGATGGTCTTGATGATGAAGA
Found at i:781424 original size:19 final size:20
Alignment explanation
Indices: 781377--781427 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 20
781367 AAAACCCCTT
**
781377 TGAAAATACATGATTTTTGA
1 TGAAAATACATGATTTTAAA
781397 TGAAAATACATGA-TTTAAA
1 TGAAAATACATGATTTTAAA
*
781416 TGAAGATACATG
1 TGAAAATACATG
781428 CTCTTGGCCT
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 15 0.54
20 13 0.46
ACGTcount: A:0.45, C:0.06, G:0.16, T:0.33
Consensus pattern (20 bp):
TGAAAATACATGATTTTAAA
Found at i:785146 original size:18 final size:18
Alignment explanation
Indices: 785123--785159 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
785113 TCCCATTTAC
785123 TGGATCTGTGTTTTACCA
1 TGGATCTGTGTTTTACCA
785141 TGGATCTGTGTTTTACCA
1 TGGATCTGTGTTTTACCA
785159 T
1 T
785160 AAATGTGTCA
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:0.16, C:0.16, G:0.22, T:0.46
Consensus pattern (18 bp):
TGGATCTGTGTTTTACCA
Found at i:786284 original size:21 final size:21
Alignment explanation
Indices: 786245--786286 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 21
786235 GTTTTATTTA
786245 TGATTTTGTTTCGGATTTGCTT
1 TGATTTTGTTTC-GATTTGCTT
786267 TGATTTTGTGTT-GATTTGCT
1 TGATTTTGT-TTCGATTTGCT
786287 CGGTTTCTTC
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 8 0.42
22 9 0.47
23 2 0.11
ACGTcount: A:0.10, C:0.07, G:0.24, T:0.60
Consensus pattern (21 bp):
TGATTTTGTTTCGATTTGCTT
Found at i:786643 original size:7 final size:7
Alignment explanation
Indices: 786622--786655 Score: 50
Period size: 7 Copynumber: 4.7 Consensus size: 7
786612 AATCAAAACT
786622 AAAAATA
1 AAAAATA
786629 AAATAATA
1 AAA-AATA
*
786637 ATAAATA
1 AAAAATA
786644 AAAAATA
1 AAAAATA
786651 AAAAA
1 AAAAA
786656 AGGAAAAGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
7 18 0.75
8 6 0.25
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (7 bp):
AAAAATA
Found at i:786761 original size:22 final size:22
Alignment explanation
Indices: 786726--786865 Score: 113
Period size: 22 Copynumber: 6.0 Consensus size: 22
786716 AAAGCTATGT
786726 AATAT-ATATATTTTCAAAAAC
1 AATATAATATATTTTCAAAAAC
* *
786747 AATATAATATGTTTTCAAAATATAT
1 AATATAATATATTTTC-AAA-A-AC
786772 ATATATTATATATATTTTCAAAAAC
1 A-ATA-TA-ATATATTTTCAAAAAC
*
786797 TATATATATTATATGTTTTC-AAAAC
1 -A-ATATA--ATATATTTTCAAAAAC
* *
786822 TATATAATATGTTTTCAAAAAC
1 AATATAATATATTTTCAAAAAC
* *
786844 TATATTATATATTTTCAAAAAC
1 AATATAATATATTTTCAAAAAC
786866 TATTTTATAT
Statistics
Matches: 101, Mismatches: 8, Indels: 19
0.79 0.06 0.15
Matches are distributed among these distances:
21 15 0.15
22 34 0.34
23 8 0.08
24 1 0.01
25 10 0.10
26 19 0.19
27 5 0.05
28 9 0.09
ACGTcount: A:0.46, C:0.08, G:0.02, T:0.44
Consensus pattern (22 bp):
AATATAATATATTTTCAAAAAC
Found at i:786789 original size:28 final size:27
Alignment explanation
Indices: 786753--786831 Score: 101
Period size: 28 Copynumber: 2.9 Consensus size: 27
786743 AAACAATATA
786753 ATATGTTTTCAAAATATATATATATTAT
1 ATATGTTTTCAAAATATATATATATT-T
*
786781 ATATATTTTCAAAA-ACTATATATA-TT
1 ATATGTTTTCAAAATA-TATATATATTT
786807 ATATGTTTTCAAAACTATATA-ATAT
1 ATATGTTTTCAAAA-TATATATATAT
786832 GTTTTCAAAA
Statistics
Matches: 45, Mismatches: 2, Indels: 9
0.80 0.04 0.16
Matches are distributed among these distances:
26 17 0.38
27 6 0.13
28 22 0.49
ACGTcount: A:0.44, C:0.06, G:0.03, T:0.47
Consensus pattern (27 bp):
ATATGTTTTCAAAATATATATATATTT
Found at i:786804 original size:21 final size:21
Alignment explanation
Indices: 786778--786878 Score: 105
Period size: 22 Copynumber: 4.5 Consensus size: 21
786768 ATATATATAT
786778 TATATATATTTTCAAAAACTATA
1 TATATATATTTTCAAAAAC--TA
786801 TATATTATATGTTTTC-AAAACTA
1 TATA-TATA--TTTTCAAAAACTA
*
786824 TATAATATGTTTTCAAAAACTA
1 TAT-ATATATTTTCAAAAACTA
786846 TATTATATATTTTCAAAAACTA
1 TA-TATATATTTTCAAAAACTA
*
786868 TTTTATATATT
1 -TATATATATT
786879 ATAATATATA
Statistics
Matches: 68, Mismatches: 3, Indels: 15
0.79 0.03 0.17
Matches are distributed among these distances:
21 5 0.07
22 34 0.50
23 14 0.21
24 5 0.07
25 5 0.07
26 5 0.07
ACGTcount: A:0.43, C:0.08, G:0.02, T:0.48
Consensus pattern (21 bp):
TATATATATTTTCAAAAACTA
Found at i:786821 original size:75 final size:71
Alignment explanation
Indices: 786700--786877 Score: 195
Period size: 75 Copynumber: 2.5 Consensus size: 71
786690 TAATAATGTG
* * *
786700 TATA-ATATATATTTT-GAAAGCTATGTAATATATATATTTTCAAAAACAATATAATATGTTTTC
1 TATATATATATATTTTCAAAAACTATATAATATATATATTTTCAAAAACAATATAATATGTTTTC
786763 AAAATATATA
66 -AAA-A-A-A
* *
786773 TATATTATATATATTTTCAAAAACTATAT-ATATTATATGTTTTC-AAAACTATATAATATGTTT
1 TATA-TATATATATTTTCAAAAACTATATAATA-TATATATTTTCAAAAACAATATAATATGTTT
*
786836 TCAAAAAC
64 TCAAAAAA
* *
786844 TATAT-TATATATTTTCAAAAACTATTTTATATAT
1 TATATATATATATTTTCAAAAACTATATAATATAT
786878 TATAATATAT
Statistics
Matches: 93, Mismatches: 7, Indels: 14
0.82 0.06 0.12
Matches are distributed among these distances:
69 24 0.26
70 4 0.04
71 4 0.04
72 1 0.01
73 5 0.05
74 3 0.03
75 34 0.37
76 18 0.19
ACGTcount: A:0.44, C:0.07, G:0.03, T:0.46
Consensus pattern (71 bp):
TATATATATATATTTTCAAAAACTATATAATATATATATTTTCAAAAACAATATAATATGTTTTC
AAAAAA
Found at i:786866 original size:22 final size:22
Alignment explanation
Indices: 786801--786878 Score: 113
Period size: 22 Copynumber: 3.6 Consensus size: 22
786791 AAAAACTATA
*
786801 TATATTATATGTTTTC-AAAAC
1 TATATTATATATTTTCAAAAAC
* *
786822 TATATAATATGTTTTCAAAAAC
1 TATATTATATATTTTCAAAAAC
786844 TATATTATATATTTTCAAAAAC
1 TATATTATATATTTTCAAAAAC
*
786866 TATTTTATATATT
1 TATATTATATATT
786879 ATAATATATA
Statistics
Matches: 52, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
21 15 0.29
22 37 0.71
ACGTcount: A:0.41, C:0.08, G:0.03, T:0.49
Consensus pattern (22 bp):
TATATTATATATTTTCAAAAAC
Found at i:788744 original size:19 final size:19
Alignment explanation
Indices: 788717--788759 Score: 77
Period size: 19 Copynumber: 2.3 Consensus size: 19
788707 GTGGAGACGA
*
788717 TACTCACTCATCACTTTAT
1 TACTTACTCATCACTTTAT
788736 TACTTACTCATCACTTTAT
1 TACTTACTCATCACTTTAT
788755 TACTT
1 TACTT
788760 GAGTGATTGT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 23 1.00
ACGTcount: A:0.26, C:0.28, G:0.00, T:0.47
Consensus pattern (19 bp):
TACTTACTCATCACTTTAT
Found at i:802974 original size:14 final size:14
Alignment explanation
Indices: 802955--802994 Score: 71
Period size: 14 Copynumber: 2.9 Consensus size: 14
802945 AGAAAAAAAA
802955 AGATGAAGAAGAAT
1 AGATGAAGAAGAAT
802969 AGATGAAGAAGAAT
1 AGATGAAGAAGAAT
*
802983 AGAGGAAGAAGA
1 AGATGAAGAAGA
802995 CAAAACATTA
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.57, C:0.00, G:0.33, T:0.10
Consensus pattern (14 bp):
AGATGAAGAAGAAT
Found at i:811161 original size:22 final size:22
Alignment explanation
Indices: 811133--811181 Score: 71
Period size: 22 Copynumber: 2.2 Consensus size: 22
811123 CGTATGATAT
811133 CTACCCGAACATGCTTTTGTTC
1 CTACCCGAACATGCTTTTGTTC
* * *
811155 CTACCCGGACATGTTTTTTTTC
1 CTACCCGAACATGCTTTTGTTC
811177 CTACC
1 CTACC
811182 TAGACATGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.16, C:0.33, G:0.12, T:0.39
Consensus pattern (22 bp):
CTACCCGAACATGCTTTTGTTC
Found at i:811187 original size:22 final size:22
Alignment explanation
Indices: 811133--811189 Score: 62
Period size: 22 Copynumber: 2.6 Consensus size: 22
811123 CGTATGATAT
811133 CTACCC-GAACATGCTTTTGTTC
1 CTACCCAG-ACATGCTTTTGTTC
* * *
811155 CTACCCGGACATGTTTTTTTTC
1 CTACCCAGACATGCTTTTGTTC
*
811177 CTACCTAGACATG
1 CTACCCAGACATG
811190 GTTTCTAATC
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 29 0.97
23 1 0.03
ACGTcount: A:0.19, C:0.30, G:0.14, T:0.37
Consensus pattern (22 bp):
CTACCCAGACATGCTTTTGTTC
Found at i:813406 original size:22 final size:25
Alignment explanation
Indices: 813366--813508 Score: 93
Period size: 27 Copynumber: 5.6 Consensus size: 25
813356 TAAAAACTAT
813366 ATAATATATATTATA-TTTTCAAAA
1 ATAATATATATTATATTTTTCAAAA
*
813390 ATAATATA-A-TATGTTTTTCAAAA
1 ATAATATATATTATATTTTTCAAAA
*
813413 TTTATATATATATATATTATATTTTCAAAA
1 -ATA-ATATATAT-TA-TAT-TTTTCAAAA
**
813443 ACTACCATATATTATATGTTTTCAAAA
1 A-TAATATATATTATAT-TTTTCAAAA
* *
813470 CT-ATATA-A-TAT-GTTTTCAAAA
1 ATAATATATATTATATTTTTCAAAA
813491 ATTATATTATATATTATA
1 A-TA-A-TATATATTATA
813509 ATATATAATA
Statistics
Matches: 91, Mismatches: 12, Indels: 28
0.69 0.09 0.21
Matches are distributed among these distances:
21 9 0.10
22 4 0.04
23 13 0.14
24 12 0.13
25 12 0.13
26 3 0.03
27 15 0.16
28 4 0.04
29 8 0.09
30 11 0.12
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (25 bp):
ATAATATATATTATATTTTTCAAAA
Found at i:813419 original size:23 final size:24
Alignment explanation
Indices: 813366--813504 Score: 92
Period size: 23 Copynumber: 5.5 Consensus size: 24
813356 TAAAAACTAT
*
813366 ATAATATATATTAT-ATTTTCAAAA
1 ATAATATATA-TATGTTTTTCAAAA
813390 ATAATATA-ATATGTTTTTCAAAA
1 ATAATATATATATGTTTTTCAAAA
*
813413 TTTATATATATATATATTATATTTTCAAAA
1 ---ATA-ATATATATA-TGT-TTTTCAAAA
813443 ACTACCATATATTATATG-TTTTCAAAA
1 A-TA--ATATA-TATATGTTTTTCAAAA
*
813470 CT-ATATA-ATATG-TTTTCAAAA
1 ATAATATATATATGTTTTTCAAAA
*
813491 ATTATATTATATAT
1 ATAATA-TATATAT
813505 TATAATATAT
Statistics
Matches: 95, Mismatches: 6, Indels: 28
0.74 0.05 0.22
Matches are distributed among these distances:
21 15 0.16
22 6 0.06
23 17 0.18
24 12 0.13
26 4 0.04
27 15 0.16
28 5 0.05
29 8 0.08
30 13 0.14
ACGTcount: A:0.45, C:0.06, G:0.02, T:0.47
Consensus pattern (24 bp):
ATAATATATATATGTTTTTCAAAA
Found at i:813435 original size:53 final size:54
Alignment explanation
Indices: 813346--813480 Score: 163
Period size: 53 Copynumber: 2.5 Consensus size: 54
813336 AATATGTATA
* **
813346 ATATATATTTT-AAAAACTATATAATATATATTATATTTTCAAAAA-TA-ATAT
1 ATATATGTTTTCAAAATTTATATAATATATATTATATTTTCAAAAACTACATAT
813397 A-ATATGTTTTTCAAAATTTATATATATATATATTATATTTTCAAAAACTACCATAT
1 ATATATG-TTTTCAAAATTTATATA-ATATATATTATATTTTCAAAAACTA-CATAT
*
813453 ATTATATGTTTTCAAAA-CTATATAATAT
1 A-TATATGTTTTCAAAATTTATATAATAT
813481 GTTTTCAAAA
Statistics
Matches: 72, Mismatches: 4, Indels: 12
0.82 0.05 0.14
Matches are distributed among these distances:
50 4 0.06
51 5 0.07
52 10 0.14
53 22 0.31
54 2 0.03
55 4 0.06
56 11 0.15
57 9 0.12
58 5 0.07
ACGTcount: A:0.46, C:0.07, G:0.01, T:0.46
Consensus pattern (54 bp):
ATATATGTTTTCAAAATTTATATAATATATATTATATTTTCAAAAACTACATAT
Found at i:813480 original size:21 final size:21
Alignment explanation
Indices: 813450--813490 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
813440 AAAACTACCA
*
813450 TATATTATATGTTTTCAAAAC
1 TATATAATATGTTTTCAAAAC
813471 TATATAATATGTTTTCAAAA
1 TATATAATATGTTTTCAAAA
813491 ATTATATTAT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.46
Consensus pattern (21 bp):
TATATAATATGTTTTCAAAAC
Found at i:815896 original size:37 final size:37
Alignment explanation
Indices: 815807--815902 Score: 129
Period size: 37 Copynumber: 2.6 Consensus size: 37
815797 CTTTTCGTCT
* *
815807 TACTAGGATTCAAACTCCTAAAAATATGATAGAATTT
1 TACTAGGATTCAAACTCCTAAAAATAAGATAGAATTC
* *
815844 TGCTAGGATTCAAACTCCTAAAAATAAGATAGAGTTC
1 TACTAGGATTCAAACTCCTAAAAATAAGATAGAATTC
** *
815881 TACTATTATTTAAACTCCTAAA
1 TACTAGGATTCAAACTCCTAAA
815903 GATAGGATCC
Statistics
Matches: 51, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 51 1.00
ACGTcount: A:0.42, C:0.16, G:0.10, T:0.32
Consensus pattern (37 bp):
TACTAGGATTCAAACTCCTAAAAATAAGATAGAATTC
Found at i:816626 original size:51 final size:48
Alignment explanation
Indices: 816571--816682 Score: 109
Period size: 48 Copynumber: 2.2 Consensus size: 48
816561 ATTTATTTTT
*
816571 CATTTATTTATTATTATTGTTACTATTTAGTATTTTATTATATTATACATA
1 CATTTATTTATTATTA-T-ATA-TATTTAGTATTTTATTATATTATACATA
* ** * **
816622 CATTT-TTATATTTTTATATATATTTTTTATTTTATTATTTTATTTATA
1 CATTTATT-TATTATTATATATATTTAGTATTTTATTATATTATACATA
816670 CTATTTATTTATT
1 C-ATTTATTTATT
816683 TTCATTTCTT
Statistics
Matches: 51, Mismatches: 7, Indels: 8
0.77 0.11 0.12
Matches are distributed among these distances:
48 24 0.47
49 10 0.20
50 5 0.10
51 12 0.24
ACGTcount: A:0.29, C:0.04, G:0.02, T:0.65
Consensus pattern (48 bp):
CATTTATTTATTATTATATATATTTAGTATTTTATTATATTATACATA
Found at i:816654 original size:26 final size:30
Alignment explanation
Indices: 816625--816684 Score: 83
Period size: 30 Copynumber: 2.1 Consensus size: 30
816615 ATACATACAT
816625 TTTTA-TATTTT-TATATA-TATTT-TTTA
1 TTTTATTATTTTATATATACTATTTATTTA
*
816651 TTTTATTATTTTATTTATACTATTTATTTA
1 TTTTATTATTTTATATATACTATTTATTTA
816681 TTTT
1 TTTT
816685 CATTTCTTTG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
26 5 0.17
27 6 0.21
28 5 0.17
29 5 0.17
30 8 0.28
ACGTcount: A:0.25, C:0.02, G:0.00, T:0.73
Consensus pattern (30 bp):
TTTTATTATTTTATATATACTATTTATTTA
Found at i:816676 original size:13 final size:14
Alignment explanation
Indices: 816633--816681 Score: 50
Period size: 13 Copynumber: 3.7 Consensus size: 14
816623 ATTTTTATAT
* *
816633 TTTTATATATA-TT
1 TTTTATTTATACTA
*
816646 TTTTATTT-TATTA
1 TTTTATTTATACTA
816659 TTTTATTTATACTA
1 TTTTATTTATACTA
816673 -TTTATTTAT
1 TTTTATTTAT
816682 TTTCATTTCT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
12 2 0.06
13 25 0.81
14 4 0.13
ACGTcount: A:0.27, C:0.02, G:0.00, T:0.71
Consensus pattern (14 bp):
TTTTATTTATACTA
Found at i:817864 original size:18 final size:20
Alignment explanation
Indices: 817824--817864 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
817814 TCTTTCGTCA
* *
817824 TTTCATATTTACTTATATGT
1 TTTCATATTTACTAACATGT
817844 TTTCAT-TTTACTAACAT-T
1 TTTCATATTTACTAACATGT
817862 TTT
1 TTT
817865 ACCTTTGTGT
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
18 4 0.21
19 9 0.47
20 6 0.32
ACGTcount: A:0.24, C:0.12, G:0.02, T:0.61
Consensus pattern (20 bp):
TTTCATATTTACTAACATGT
Found at i:821313 original size:16 final size:16
Alignment explanation
Indices: 821292--821332 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
821282 GCAAAAAAGC
821292 AAAGAAAAAAGAA-AA
1 AAAGAAAAAAGAATAA
*
821307 AAGAGAAACAAGAATAA
1 AA-AGAAAAAAGAATAA
821324 AAAGAAAAA
1 AAAGAAAAA
821333 GGGACAAAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
15 2 0.09
16 16 0.73
17 4 0.18
ACGTcount: A:0.80, C:0.02, G:0.15, T:0.02
Consensus pattern (16 bp):
AAAGAAAAAAGAATAA
Found at i:821654 original size:172 final size:172
Alignment explanation
Indices: 821368--821712 Score: 636
Period size: 172 Copynumber: 2.0 Consensus size: 172
821358 CCCTAAAGAC
* *
821368 AAATGGCACATCAAGCTTCAAACTATGAGATTGATCAATCACAATCATTCCCGAATCACTGAATC
1 AAATGGCACATCAAGCTTCAAACTATCAGATTGATCAAGCACAATCATTCCCGAATCACTGAATC
* *
821433 ACTTCACTTGAAGATCATAGAGCATCAAAAGAGAGAAACATTTTGAGCAGGATTGAAGACATCAG
66 ACTTCACTCGAAGATCATAGAGAATCAAAAGAGAGAAACATTTTGAGCAGGATTGAAGACATCAG
821498 AATGAATTGATCCTTGGTTCAACACCCTGAAACACTTGTTTG
131 AATGAATTGATCCTTGGTTCAACACCCTGAAACACTTGTTTG
*
821540 AAATGGCACATCAAGCTTCAAACTATCAGATTGATCAAGCACAATCATTCTCGAATCACTGAATC
1 AAATGGCACATCAAGCTTCAAACTATCAGATTGATCAAGCACAATCATTCCCGAATCACTGAATC
*
821605 ACTTCACTCGAAGATCATAGAGAATCAAGAGAGAGAAACATTTTGAGCAGGATTGAAGACATCAG
66 ACTTCACTCGAAGATCATAGAGAATCAAAAGAGAGAAACATTTTGAGCAGGATTGAAGACATCAG
821670 AATGAATTGATCCTTGGTTCAACACCCTGAAACACTTGTTTG
131 AATGAATTGATCCTTGGTTCAACACCCTGAAACACTTGTTTG
821712 A
1 A
821713 GCCTATTTAT
Statistics
Matches: 167, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
172 167 1.00
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.25
Consensus pattern (172 bp):
AAATGGCACATCAAGCTTCAAACTATCAGATTGATCAAGCACAATCATTCCCGAATCACTGAATC
ACTTCACTCGAAGATCATAGAGAATCAAAAGAGAGAAACATTTTGAGCAGGATTGAAGACATCAG
AATGAATTGATCCTTGGTTCAACACCCTGAAACACTTGTTTG
Found at i:822140 original size:22 final size:22
Alignment explanation
Indices: 822112--822156 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
822102 CCCCATCAAT
822112 CCTTTGAGCATCAAATACCAAA
1 CCTTTGAGCATCAAATACCAAA
*
822134 CCTTTGAGCATCAAATGCCAAA
1 CCTTTGAGCATCAAATACCAAA
822156 C
1 C
822157 ACAATAACCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.38, C:0.29, G:0.11, T:0.22
Consensus pattern (22 bp):
CCTTTGAGCATCAAATACCAAA
Found at i:822580 original size:18 final size:19
Alignment explanation
Indices: 822557--822593 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
822547 TCAATATCAA
*
822557 ATATTGGGGTATT-TTTGG
1 ATATTGGGGCATTATTTGG
822575 ATATTGGGGCATTATTTGG
1 ATATTGGGGCATTATTTGG
822594 GGATTCAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 12 0.71
19 5 0.29
ACGTcount: A:0.19, C:0.03, G:0.32, T:0.46
Consensus pattern (19 bp):
ATATTGGGGCATTATTTGG
Found at i:823471 original size:105 final size:106
Alignment explanation
Indices: 823105--823848 Score: 1152
Period size: 106 Copynumber: 7.0 Consensus size: 106
823095 ATATCGTGCC
* *
823105 ACTCGAGACAACACAAGTTTAACTTTACAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCCC
823170 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
823211 ACTCAAGACAACACAAGTTCAACTTCACAATGAAGGGACGGCTGGTTGTCAACAAACAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCCC
* *
823276 AATTTCAGAGCCAATTTCAACTTCAAATCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* ** * **
823317 ACTCCAGACAATGCAAGTTCAACTTCACGACGAAGGGACCACTGGTTGTCAACAAACAACTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCCC
* *
823382 AATTTCAGAGCCAATTTTAACTTCACAACGAA-GATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* *
823422 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAAC-AATAATTTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCCC
* *
823486 AATTTCAGAGTCAGTTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
823527 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGATGGCTGGTTGTCAAC-AACAATTTCCT
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCCC
*
823591 AATTTCAGAGCCAATTTCAACTTCACAACGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* ** *
823632 ACTCAAGACAACACAAGTTCAACTTCACAACGAAGGGACAACTGGTTGTCAACAAACAACTTCTC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCCC
823697 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
* * *
823738 ACTCGAGACAACACAAGTTCAACTTCAAAACGAAGGGACGGCTGGTTATCAACAAACAAATTCCC
1 ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCCC
* * * * *
823803 AGTTCCAGAACCAATTTCAACTTCACGGCGGAGGATATTGG
66 AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
823844 ACTCG
1 ACTCG
823849 GAACAGTACA
Statistics
Matches: 580, Mismatches: 56, Indels: 4
0.91 0.09 0.01
Matches are distributed among these distances:
104 37 0.06
105 211 0.36
106 332 0.57
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.23
Consensus pattern (106 bp):
ACTCGAGACAACACAAGTTCAACTTCACAACGAAGGGACGGCTGGTTGTCAACAAACAACTTCCC
AATTTCAGAGCCAATTTCAACTTCACAGCGAAGGATATTGG
Found at i:824255 original size:84 final size:83
Alignment explanation
Indices: 824026--824309 Score: 383
Period size: 83 Copynumber: 3.4 Consensus size: 83
824016 TCCAACTCAA
* * * *
824026 AGAAGGAG-TATCTGTCAACAAAGACCTTCGAGTTTGATTACACTCAGCTCCAAGGCGCATCATT
1 AGAAGG-GCTATCTGTCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
*
824090 TACAGCATAGCTCAAGGCT
65 TGCAGCATAGCTCAAGGCT
*
824109 AGAAGGGCTATCTGTCAGCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
1 AGAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
* *
824174 GCAACATAGCTCAAGGCA
66 GCAGCATAGCTCAAGGCT
* * * * * *
824192 AGAAGGGCTATTTGCCAACAAAAGACCTTCGAGTTCGACTACGCTTAACTCTAAGGCATATCATT
1 AGAAGGGCTATCTGTCAAC-AAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATT
*
824257 TGCAGCATAACTCAAGGCT
65 TGCAGCATAGCTCAAGGCT
*
824276 AGAAGGG-TGATCTGTCATCAAAGACCTTCGAGTT
1 AGAAGGGCT-ATCTGTCAACAAAGACCTTCGAGTT
824310 TGATTACATT
Statistics
Matches: 177, Mismatches: 21, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
82 1 0.01
83 105 0.59
84 71 0.40
ACGTcount: A:0.31, C:0.24, G:0.21, T:0.24
Consensus pattern (83 bp):
AGAAGGGCTATCTGTCAACAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATCATTT
GCAGCATAGCTCAAGGCT
Found at i:824396 original size:167 final size:167
Alignment explanation
Indices: 824041--824383 Score: 395
Period size: 167 Copynumber: 2.0 Consensus size: 167
824031 GAGTATCTGT
* * * * * * ** *
824041 CAAC-AAAGACCTTCGAGTTTGATTACACTCAGCTCCAAGGCGCATCATTTACAGCATAGCTCAA
1 CAACAAAAGACCTTCGAGTTCGACTACGCTTAACTCTAAGGCATATCATTTACAGCATAACTCAA
* * * *
824105 GGCTAGAAGGGCTATCTGTCAGCAAAGACCTTCGAGTTCGACTACGCTCAGCTCCAAGGCACATC
66 GGCTAGAAGGGCTATCTGTCAGCAAAGACCTTCGAGTTCGACTACACTCAACTCCAAGGAAAATC
* * * *
824170 ATTTGCAACATAGCTCAAGGCAAGAAGGGCTATTTGC
131 ATTTACAACATAACTCAAGACAAGAAGGGCTATATGC
*
824207 CAACAAAAGACCTTCGAGTTCGACTACGCTTAACTCTAAGGCATATCATTTGCAGCATAACTCAA
1 CAACAAAAGACCTTCGAGTTCGACTACGCTTAACTCTAAGGCATATCATTTACAGCATAACTCAA
* * * *
824272 GGCTAGAAGGG-TGATCTGTCATCAAAGACCTTCGAGTTTGATTACATTCAACT-CAGAGGAAAA
66 GGCTAGAAGGGCT-ATCTGTCAGCAAAGACCTTCGAGTTCGACTACACTCAACTCCA-AGGAAAA
* * *
824335 TCAAATTTACAGCATAACTCAAGACGAGAAGGGTTATATGC
129 TC--ATTTACAACATAACTCAAGACAAGAAGGGCTATATGC
*
824376 CATCAAAA
1 CAACAAAA
824384 TTGTCGAGTT
Statistics
Matches: 146, Mismatches: 26, Indels: 7
0.82 0.15 0.04
Matches are distributed among these distances:
166 7 0.05
167 102 0.70
169 37 0.25
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.23
Consensus pattern (167 bp):
CAACAAAAGACCTTCGAGTTCGACTACGCTTAACTCTAAGGCATATCATTTACAGCATAACTCAA
GGCTAGAAGGGCTATCTGTCAGCAAAGACCTTCGAGTTCGACTACACTCAACTCCAAGGAAAATC
ATTTACAACATAACTCAAGACAAGAAGGGCTATATGC
Found at i:824943 original size:37 final size:37
Alignment explanation
Indices: 824848--824952 Score: 129
Period size: 37 Copynumber: 2.8 Consensus size: 37
824838 CCTTTTCGTC
824848 CTACTAGGATTCAAACTCCTAAAAATAGGATACAATT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATACAATT
* * * *
824885 TTGCTAGGATTCAAACTCCTAAAAATAGGATAGAGTT
1 CTACTAGGATTCAAACTCCTAAAAATAGGATACAATT
** * * *
824922 CTACTATTATTTAAACCCCTAAAGATAGGAT
1 CTACTAGGATTCAAACTCCTAAAAATAGGAT
824953 CCACAAGCAT
Statistics
Matches: 57, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
37 57 1.00
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (37 bp):
CTACTAGGATTCAAACTCCTAAAAATAGGATACAATT
Found at i:825353 original size:2 final size:2
Alignment explanation
Indices: 825340--825370 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
825330 CCTTATTATT
*
825340 TA TA TG TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
825371 TTTATTATAT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (2 bp):
TA
Found at i:825392 original size:18 final size:18
Alignment explanation
Indices: 825371--825413 Score: 52
Period size: 18 Copynumber: 2.4 Consensus size: 18
825361 ATATATATAT
*
825371 TTTATTATATT-TTATTTA
1 TTTATT-TATTATAATTTA
*
825389 TTTATTTATTATAATTTT
1 TTTATTTATTATAATTTA
825407 TTTATTT
1 TTTATTT
825414 TTCTTTGCGT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 4 0.18
18 18 0.82
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (18 bp):
TTTATTTATTATAATTTA
Found at i:825396 original size:22 final size:22
Alignment explanation
Indices: 825371--825413 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
825361 ATATATATAT
825371 TTTATTAT-ATTTTATTTATTTA
1 TTTATTATAATTTT-TTTATTTA
825393 TTTATTATAATTTTTTTATTT
1 TTTATTATAATTTTTTTATTT
825414 TTCTTTGCGT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (22 bp):
TTTATTATAATTTTTTTATTTA
Found at i:825455 original size:2 final size:2
Alignment explanation
Indices: 825448--825478 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
825438 TTCCTATTAT
825448 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
825479 TTTTTTTATC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:825541 original size:108 final size:109
Alignment explanation
Indices: 825333--825550 Score: 262
Period size: 108 Copynumber: 2.0 Consensus size: 109
825323 ATTTAACCCT
* * * *
825333 TATTATTTATATGTATATATATATATATATATATATATTTTATTATATTTTATTTATTTATTTAT
1 TATTATTTATATATATATATATATATATATATATATATTTTATTATATTATATTTACTTATTTAC
* **
825398 TATAATTTTTTTATTTTTCTTTGCGTTATATTATATTATTTTCC
66 TATAATTTTTTTATTTTTCCTAACGTTATATTATATTATTTTCC
* *
825442 TATTA-TTATATATATATATATATATATATATATATATTTT-TTTTATCTATGTTTACTTATTTA
1 TATTATTTATATATATATATATATATATATATATATATTTTATTATAT-TATATTTACTTATTTA
*
825505 CTAT-GTTTTTTTACTATATCTTCCTAACGTTATATATATATATATT
65 CTATAATTTTTTTA-T-T-T-TTCCTAACGTTATAT-TATAT-TATT
825551 CTTACTTCAT
Statistics
Matches: 92, Mismatches: 10, Indels: 10
0.82 0.09 0.09
Matches are distributed among these distances:
107 13 0.14
108 51 0.55
109 6 0.07
110 1 0.01
111 12 0.13
112 5 0.05
113 4 0.04
ACGTcount: A:0.31, C:0.06, G:0.03, T:0.61
Consensus pattern (109 bp):
TATTATTTATATATATATATATATATATATATATATATTTTATTATATTATATTTACTTATTTAC
TATAATTTTTTTATTTTTCCTAACGTTATATTATATTATTTTCC
Found at i:825627 original size:11 final size:10
Alignment explanation
Indices: 825613--825724 Score: 50
Period size: 9 Copynumber: 11.9 Consensus size: 10
825603 ATATGTATAT
*
825613 TTATTTTTTAA
1 TTATTTATT-A
825624 TTATTTATTA
1 TTATTTATTA
825634 TTA-TTATTA
1 TTATTTATTA
* *
825643 CTATTTAGTA
1 TTATTTATTA
825653 -T-TTTATTA
1 TTATTTATTA
*
825661 -TA-TTATACA
1 TTATTTAT-TA
*
825670 TACATTT-TTA
1 T-TATTTATTA
825680 -TATTT-TTA
1 TTATTTATTA
825688 TATATATT-TTA
1 T-TAT-TTATTA
825699 TT-TTTATT-
1 TTATTTATTA
825707 TTATTTA-TA
1 TTATTTATTA
825716 TTATTTATT
1 TTATTTATT
825725 TATTTTCATT
Statistics
Matches: 80, Mismatches: 8, Indels: 27
0.70 0.07 0.23
Matches are distributed among these distances:
8 23 0.29
9 24 0.30
10 15 0.19
11 16 0.20
12 2 0.03
ACGTcount: A:0.29, C:0.03, G:0.01, T:0.67
Consensus pattern (10 bp):
TTATTTATTA
Found at i:825702 original size:17 final size:17
Alignment explanation
Indices: 825676--825729 Score: 67
Period size: 17 Copynumber: 3.2 Consensus size: 17
825666 TACATACATT
825676 TTTATATTTTTATATATA
1 TTTATATTTTTAT-TATA
*
825694 TTT-TATTTTTATTTTA
1 TTTATATTTTTATTATA
825710 TTTATATTATTTATT-TA
1 TTTATATT-TTTATTATA
825727 TTT
1 TTT
825730 TCATTATGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 5
0.85 0.03 0.13
Matches are distributed among these distances:
16 6 0.18
17 18 0.55
18 9 0.27
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTATATTTTTATTATA
Found at i:825708 original size:22 final size:22
Alignment explanation
Indices: 825610--825730 Score: 65
Period size: 22 Copynumber: 5.5 Consensus size: 22
825600 ATTATATGTA
825610 TATTTATTTT-T-TA-ATTATT
1 TATTTATTTTATATATATTATT
* *
825629 TATTATTATTATTACTATTTAGTATTT
1 TA-T-TTATT-TTA-TATATATTA-TT
* * *
825656 TATTATATTATACATACATT-TT
1 TATT-TATTTTATATATATTATT
*
825678 TATAT-TTTTATATATATT-TT
1 TATTTATTTTATATATATTATT
* *
825698 ATTTTTATTTTATTTATATTATT
1 -TATTTATTTTATATATATTATT
825721 TATTTATTTT
1 TATTTATTTT
825731 CATTATGTTT
Statistics
Matches: 75, Mismatches: 15, Indels: 21
0.68 0.14 0.19
Matches are distributed among these distances:
19 2 0.03
20 13 0.17
21 9 0.12
22 28 0.37
23 2 0.03
24 5 0.07
25 4 0.05
26 8 0.11
27 4 0.05
ACGTcount: A:0.29, C:0.02, G:0.01, T:0.68
Consensus pattern (22 bp):
TATTTATTTTATATATATTATT
Found at i:825722 original size:24 final size:25
Alignment explanation
Indices: 825673--825725 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
825663 TTATACATAC
825673 ATTTTTATATTTTTATATATATTTT
1 ATTTTTATATTTTTATATATATTTT
*
825698 ATTTTTATTTTATTTATAT-TA-TTT
1 ATTTTTATATT-TTTATATATATTTT
825722 ATTT
1 ATTT
825726 ATTTTCATTA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
24 7 0.27
25 12 0.46
26 7 0.27
ACGTcount: A:0.26, C:0.00, G:0.00, T:0.74
Consensus pattern (25 bp):
ATTTTTATATTTTTATATATATTTT
Found at i:825735 original size:17 final size:17
Alignment explanation
Indices: 825692--825736 Score: 58
Period size: 17 Copynumber: 2.6 Consensus size: 17
825682 TTTTTATATA
825692 TATTTTATT-TTTATTT
1 TATTTTATTATTTATTT
825708 TATTTATATTATTTA-TT
1 TATTT-TATTATTTATTT
825725 TATTTTCATTAT
1 TATTTT-ATTAT
825737 GTTTTTAGTT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
16 6 0.23
17 16 0.62
18 4 0.15
ACGTcount: A:0.24, C:0.02, G:0.00, T:0.73
Consensus pattern (17 bp):
TATTTTATTATTTATTT
Found at i:825736 original size:13 final size:13
Alignment explanation
Indices: 825676--825727 Score: 51
Period size: 11 Copynumber: 4.4 Consensus size: 13
825666 TACATACATT
825676 TTTATATT-TTTA
1 TTTATATTATTTA
*
825688 TATATA-T-TTTA
1 TTTATATTATTTA
*
825699 TTTTTA-T-TTTA
1 TTTATATTATTTA
825710 TTTATATTATTTA
1 TTTATATTATTTA
825723 TTTAT
1 TTTAT
825728 TTTCATTATG
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
11 19 0.56
12 6 0.18
13 9 0.26
ACGTcount: A:0.27, C:0.00, G:0.00, T:0.73
Consensus pattern (13 bp):
TTTATATTATTTA
Found at i:825845 original size:24 final size:25
Alignment explanation
Indices: 825818--825888 Score: 76
Period size: 25 Copynumber: 2.8 Consensus size: 25
825808 ATATTTTATC
825818 TTCA-TTTATTTTATTTTATTCAAT
1 TTCATTTTATTTTATTTTATTCAAT
* *
825842 TTCATTTTATTTTTTTTTCATCCAA-
1 TTCATTTTATTTTATTTT-ATTCAAT
825867 TT-ATTTTATGTTTATTATTATT
1 TTCATTTTAT-TTTATT-TTATT
825889 GGTTTCATTT
Statistics
Matches: 39, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
24 11 0.28
25 21 0.54
26 7 0.18
ACGTcount: A:0.23, C:0.08, G:0.01, T:0.68
Consensus pattern (25 bp):
TTCATTTTATTTTATTTTATTCAAT
Found at i:833569 original size:46 final size:46
Alignment explanation
Indices: 833519--833910 Score: 385
Period size: 46 Copynumber: 8.5 Consensus size: 46
833509 TTATTAATAC
* * * * *
833519 AATAAATAACCTTTGAAAAGTAGTTAAAATGGTGCATTATTGTTTT
1 AATAAATGACCTCTGAAAAGTAGTTAAAACGGTGAATTATTGTTGT
* * * **
833565 AATAAATGTCCTCTGAAAAGTAGCTGAAACATTGAATTATTGTTGT
1 AATAAATGACCTCTGAAAAGTAGTTAAAACGGTGAATTATTGTTGT
* * * * *
833611 AATAAATGGCCTCTAAAAAGTAGTTGAAATGGTGAATTATTGATGT
1 AATAAATGACCTCTGAAAAGTAGTTAAAACGGTGAATTATTGTTGT
* ** * *
833657 AATAAATGACCTCTGAAAAATAACTATAACGGTGAATTATTGCTGT
1 AATAAATGACCTCTGAAAAGTAGTTAAAACGGTGAATTATTGTTGT
* * **
833703 AATAAATGGCCTCTGAAAAGTA-TCTGAAACAATGAATTATTGTTGT
1 AATAAATGACCTCTGAAAAGTAGT-TAAAACGGTGAATTATTGTTGT
* * * ** *
833749 AATAAATGACCTCTGAAAAATAGCTGAAACGGTGAATTATTACTAT
1 AATAAATGACCTCTGAAAAGTAGTTAAAACGGTGAATTATTGTTGT
* **
833795 AATAAATGACCTCTGAAAAGTAATTAAAACGGTGAATTATTACTGT
1 AATAAATGACCTCTGAAAAGTAGTTAAAACGGTGAATTATTGTTGT
* * * *
833841 AATAAATGGCCTCT-AAAAGGTAGCTAAAATGGT-ACATTATTTTTGT
1 AATAAATGACCTCTGAAAA-GTAGTTAAAACGGTGA-ATTATTGTTGT
*
833887 AATAAATGACCTCTTAAAAAGTAG
1 AATAAATGACCTC-TGAAAAGTAG
833911 CTGAAAAGTA
Statistics
Matches: 286, Mismatches: 54, Indels: 11
0.81 0.15 0.03
Matches are distributed among these distances:
45 5 0.02
46 272 0.95
47 5 0.02
48 4 0.01
ACGTcount: A:0.41, C:0.10, G:0.17, T:0.32
Consensus pattern (46 bp):
AATAAATGACCTCTGAAAAGTAGTTAAAACGGTGAATTATTGTTGT
Found at i:833696 original size:138 final size:138
Alignment explanation
Indices: 833508--833916 Score: 513
Period size: 138 Copynumber: 3.0 Consensus size: 138
833498 CAACATGAGC
* * * * * ** * * * *
833508 ATTATTAATACAATAAATAACCTTTGAAAAGTAGTTAAAATGGTGCATTATTGTTTTAATAAATG
1 ATTATTACTATAATAAATGACCTCTGAAAAATAACTAAAACGGTGAATTATTGCTGTAATAAATG
* * *
833573 TCCTCTGAAAAGTAGCTGAAACATTGAATTATTGTTGTAATAAATGGCCTCTAAAAAGTAGTTGA
66 GCCTCTGAAAAGTAGCTGAAACATTGAATTATTGTTGTAATAAATGACCTCTAAAAAGTAGCTGA
*
833638 AATGGTGA
131 AACGGTGA
* *
833646 ATTATTGA-TGTAATAAATGACCTCTGAAAAATAACTATAACGGTGAATTATTGCTGTAATAAAT
1 ATTATT-ACTATAATAAATGACCTCTGAAAAATAACTAAAACGGTGAATTATTGCTGTAATAAAT
* *
833710 GGCCTCTGAAAAGTATCTGAAACAATGAATTATTGTTGTAATAAATGACCTCTGAAAAA-TAGCT
65 GGCCTCTGAAAAGTAGCTGAAACATTGAATTATTGTTGTAATAAATGACCTCT-AAAAAGTAGCT
833774 GAAACGGTGA
129 GAAACGGTGA
* * *
833784 ATTATTACTATAATAAATGACCTCTGAAAAGTAATTAAAACGGTGAATTATTACTGTAATAAATG
1 ATTATTACTATAATAAATGACCTCTGAAAAATAACTAAAACGGTGAATTATTGCTGTAATAAATG
* *
833849 GCCTCT-AAAAGGTAGCT-AAA-ATGGTACATTATTTTTGTAATAAATGACCTCTTAAAAAGTAG
66 GCCTCTGAAAA-GTAGCTGAAACATTG-A-ATTATTGTTGTAATAAATGACCTC-TAAAAAGTAG
833911 CTGAAA
127 CTGAAA
833917 AGTAACTGAA
Statistics
Matches: 236, Mismatches: 27, Indels: 15
0.85 0.10 0.05
Matches are distributed among these distances:
136 2 0.01
137 9 0.04
138 209 0.89
139 16 0.07
ACGTcount: A:0.41, C:0.11, G:0.16, T:0.33
Consensus pattern (138 bp):
ATTATTACTATAATAAATGACCTCTGAAAAATAACTAAAACGGTGAATTATTGCTGTAATAAATG
GCCTCTGAAAAGTAGCTGAAACATTGAATTATTGTTGTAATAAATGACCTCTAAAAAGTAGCTGA
AACGGTGA
Found at i:836848 original size:21 final size:21
Alignment explanation
Indices: 836806--836848 Score: 52
Period size: 21 Copynumber: 2.0 Consensus size: 21
836796 TGCTAACTCT
*
836806 TCATTATTATTCTTCTCCTTC
1 TCATTATTATTCTTCTCATTC
*
836827 TCATTCATT-TTCTTCTTATTC
1 TCATT-ATTATTCTTCTCATTC
836848 T
1 T
836849 TTTCCTCCTC
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
21 16 0.84
22 3 0.16
ACGTcount: A:0.14, C:0.26, G:0.00, T:0.60
Consensus pattern (21 bp):
TCATTATTATTCTTCTCATTC
Found at i:838096 original size:48 final size:48
Alignment explanation
Indices: 838037--838173 Score: 256
Period size: 48 Copynumber: 2.9 Consensus size: 48
838027 ATGTTTTGTT
*
838037 TTGTCAGTATATGTATGTATATATTATTAGCATATTAGTATTTTAAAG
1 TTGTCAATATATGTATGTATATATTATTAGCATATTAGTATTTTAAAG
838085 TTGTCAATATATGTATGTATATATTATTAGCATATTAGTATTTTAAAG
1 TTGTCAATATATGTATGTATATATTATTAGCATATTAGTATTTTAAAG
*
838133 TTGTCAATATATGTATGTATATATTATTAGTATATTAGTAT
1 TTGTCAATATATGTATGTATATATTATTAGCATATTAGTAT
838174 ATATTATTAG
Statistics
Matches: 87, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
48 87 1.00
ACGTcount: A:0.34, C:0.04, G:0.13, T:0.49
Consensus pattern (48 bp):
TTGTCAATATATGTATGTATATATTATTAGCATATTAGTATTTTAAAG
Found at i:838168 original size:11 final size:11
Alignment explanation
Indices: 838152--838191 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
838142 TATGTATGTA
838152 TATATTATTAG
1 TATATTATTAG
*
838163 TATATTAGTA-
1 TATATTATTAG
838173 TATATTATTAG
1 TATATTATTAG
*
838184 CATATTAT
1 TATATTAT
838192 GGTTTTATAG
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
10 9 0.36
11 16 0.64
ACGTcount: A:0.38, C:0.03, G:0.07, T:0.53
Consensus pattern (11 bp):
TATATTATTAG
Found at i:838174 original size:21 final size:22
Alignment explanation
Indices: 838042--838192 Score: 83
Period size: 21 Copynumber: 6.5 Consensus size: 22
838032 TTGTTTTGTC
838042 AGTATATGTATGTATATATTATT
1 AGTATAT-TATGTATATATTATT
* * * *
838065 AGCATATTA-GTATTTTAAAGTTGTC
1 AGTATATTATGTA---TATA-TTATT
*
838090 AATATATGTATGTATATATTATT
1 AGTATAT-TATGTATATATTATT
* * * *
838113 AGCATATTA-GTATTTTAAAGTTGTC
1 AGTATATTATGTA---TATA-TTATT
*
838138 AATATATGTATGTATATATTATT
1 AGTATAT-TATGTATATATTATT
838161 AGTATATTA-GTATATATTATT
1 AGTATATTATGTATATATTATT
*
838182 AGCATATTATG
1 AGTATATTATG
838193 GTTTTATAGT
Statistics
Matches: 94, Mismatches: 21, Indels: 27
0.66 0.15 0.19
Matches are distributed among these distances:
21 26 0.28
22 7 0.07
23 23 0.24
24 12 0.13
25 16 0.17
26 4 0.04
27 6 0.06
ACGTcount: A:0.36, C:0.03, G:0.13, T:0.48
Consensus pattern (22 bp):
AGTATATTATGTATATATTATT
Found at i:846810 original size:22 final size:23
Alignment explanation
Indices: 846782--846835 Score: 83
Period size: 23 Copynumber: 2.4 Consensus size: 23
846772 GCCAACCAAA
846782 CATGGGAATAT-GATTTCATTCC
1 CATGGGAATATGGATTTCATTCC
* *
846804 CATGGGAATGTGGATTTCATTCT
1 CATGGGAATATGGATTTCATTCC
846827 CATGGGAAT
1 CATGGGAAT
846836 CTCACATTCT
Statistics
Matches: 29, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 10 0.34
23 19 0.66
ACGTcount: A:0.26, C:0.15, G:0.24, T:0.35
Consensus pattern (23 bp):
CATGGGAATATGGATTTCATTCC
Found at i:848105 original size:46 final size:46
Alignment explanation
Indices: 848055--848405 Score: 386
Period size: 46 Copynumber: 7.6 Consensus size: 46
848045 TTATTACTAC
* *
848055 AATAAATGACCTCTGAAAAGTAGCTGAAACGATGCATTATTGCTGT
1 AATAAATGACCTCTGAAAAGTAGTTGAAACGATGAATTATTGCTGT
* * *
848101 AATAAATGACCTCTAAAAAGTAGTTGAAA-TAGTGAATTATTGATGT
1 AATAAATGACCTCTGAAAAGTAGTTGAAACGA-TGAATTATTGCTGT
* * *
848147 AATAAATGGCCTCTGAAAAGTAGTTGAAATGATGAATTATTGTTGT
1 AATAAATGACCTCTGAAAAGTAGTTGAAACGATGAATTATTGCTGT
* * * * *
848193 AATAAATTACCTCTAAAAAGTAGCT-AAATCTG-TGAACTATTGTTGT
1 AATAAATGACCTCTGAAAAGTAGTTGAAA-C-GATGAATTATTGCTGT
* * * * * * * * *
848239 AATAAATGGCCTCCGAAAAATAGCTAAAATGGTAAATTATTGCTGA
1 AATAAATGACCTCTGAAAAGTAGTTGAAACGATGAATTATTGCTGT
* *
848285 AATAAATGACCTCTGAAAAGTAGTTGAAACGGTGAATTATTACTGT
1 AATAAATGACCTCTGAAAAGTAGTTGAAACGATGAATTATTGCTGT
** *
848331 AATAAATGACCTCTGAAAAGTAAATGAAAC-AGTGAATTATTGTTGT
1 AATAAATGACCTCTGAAAAGTAGTTGAAACGA-TGAATTATTGCTGT
*
848377 AATAAATGACCTCTAAAAAGTAGTTGAAA
1 AATAAATGACCTCTGAAAAGTAGTTGAAA
848406 AGTAACTGAA
Statistics
Matches: 256, Mismatches: 42, Indels: 14
0.82 0.13 0.04
Matches are distributed among these distances:
45 5 0.02
46 246 0.96
47 5 0.02
ACGTcount: A:0.41, C:0.11, G:0.18, T:0.30
Consensus pattern (46 bp):
AATAAATGACCTCTGAAAAGTAGTTGAAACGATGAATTATTGCTGT
Found at i:848160 original size:92 final size:92
Alignment explanation
Indices: 848055--848405 Score: 438
Period size: 92 Copynumber: 3.8 Consensus size: 92
848045 TTATTACTAC
*
848055 AATAAATGACCTCTGAAAAGTAGCTGAAACGATGCATTATTGCTGTAATAAATGACCTCTAAAAA
1 AATAAATGACCTCTGAAAAGTAGCTGAAACGATGAATTATTGCTGTAATAAATGACCTCTAAAAA
848120 GTAGTTGAAATAGTGAATTATTGATGT
66 GTAGTTGAAATAGTGAATTATTGATGT
* * * * *
848147 AATAAATGGCCTCTGAAAAGTAGTTGAAATGATGAATTATTGTTGTAATAAATTACCTCTAAAAA
1 AATAAATGACCTCTGAAAAGTAGCTGAAACGATGAATTATTGCTGTAATAAATGACCTCTAAAAA
* * * *
848212 GTAGCT-AAATCTGTGAACTATTGTTGT
66 GTAGTTGAAAT-AGTGAATTATTGATGT
* * * * * * * * *
848239 AATAAATGGCCTCCGAAAAATAGCTAAAATGGTAAATTATTGCTGAAATAAATGACCTCTGAAAA
1 AATAAATGACCTCTGAAAAGTAGCTGAAACGATGAATTATTGCTGTAATAAATGACCTCTAAAAA
**
848304 GTAGTTGAAACGGTGAATTATT-ACTGT
66 GTAGTTGAAATAGTGAATTATTGA-TGT
** *
848331 AATAAATGACCTCTGAAAAGTAAATGAAAC-AGTGAATTATTGTTGTAATAAATGACCTCTAAAA
1 AATAAATGACCTCTGAAAAGTAGCTGAAACGA-TGAATTATTGCTGTAATAAATGACCTCTAAAA
848395 AGTAGTTGAAA
65 AGTAGTTGAAA
848406 AGTAACTGAA
Statistics
Matches: 218, Mismatches: 37, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
91 4 0.02
92 211 0.97
93 3 0.01
ACGTcount: A:0.41, C:0.11, G:0.18, T:0.30
Consensus pattern (92 bp):
AATAAATGACCTCTGAAAAGTAGCTGAAACGATGAATTATTGCTGTAATAAATGACCTCTAAAAA
GTAGTTGAAATAGTGAATTATTGATGT
Found at i:848213 original size:138 final size:138
Alignment explanation
Indices: 848044--848410 Score: 465
Period size: 138 Copynumber: 2.7 Consensus size: 138
848034 CAACCATATC
** * *
848044 ATTATTACTACAATAAATGACCTCTGAAAAGTAGCTGAAACGATGCATTATTGCTGTAATAAATG
1 ATTATTACTGTAATAAATGACCTCTGAAAAGTAGCTGAAACGATGAATTATTGTTGTAATAAATG
* * *
848109 ACCTCTAAAAAGTAGTTGAAATAGTGAATTATTGATGTAATAAATGGCCTCTGAAAAGTAGTTGA
66 ACCTCTAAAAAGTAGTTGAAATAGTAAATTATTGATGAAATAAATGACCTCTGAAAAGTAGTTGA
*
848174 AATGATGA
131 AACGATGA
** * * *
848182 ATTATTGTTGTAATAAATTACCTCTAAAAAGTAGCT-AAATCTG-TGAACTATTGTTGTAATAAA
1 ATTATTACTGTAATAAATGACCTCTGAAAAGTAGCTGAAA-C-GATGAATTATTGTTGTAATAAA
* * * * * *
848245 TGGCCTCCGAAAAA-TAGCTAAAATGGTAAATTATTGCTGAAATAAATGACCTCTGAAAAGTAGT
64 TGACCT-CTAAAAAGTAGTTGAAATAGTAAATTATTGATGAAATAAATGACCTCTGAAAAGTAGT
*
848309 TGAAACGGTGA
128 TGAAACGATGA
**
848320 ATTATTACTGTAATAAATGACCTCTGAAAAGTAAATGAAAC-AGTGAATTATTGTTGTAATAAAT
1 ATTATTACTGTAATAAATGACCTCTGAAAAGTAGCTGAAACGA-TGAATTATTGTTGTAATAAAT
848384 GACCTCTAAAAAGTAGTTGAAA-AGTAA
65 GACCTCTAAAAAGTAGTTGAAATAGTAA
848411 CTGAAAGATT
Statistics
Matches: 190, Mismatches: 32, Indels: 15
0.80 0.14 0.06
Matches are distributed among these distances:
137 13 0.07
138 167 0.88
139 10 0.05
ACGTcount: A:0.41, C:0.11, G:0.17, T:0.31
Consensus pattern (138 bp):
ATTATTACTGTAATAAATGACCTCTGAAAAGTAGCTGAAACGATGAATTATTGTTGTAATAAATG
ACCTCTAAAAAGTAGTTGAAATAGTAAATTATTGATGAAATAAATGACCTCTGAAAAGTAGTTGA
AACGATGA
Found at i:850036 original size:19 final size:19
Alignment explanation
Indices: 850012--850057 Score: 83
Period size: 19 Copynumber: 2.4 Consensus size: 19
850002 TACTAGACCT
*
850012 GCCTGATCTGACCTACCCC
1 GCCTGATCTGACCTAACCC
850031 GCCTGATCTGACCTAACCC
1 GCCTGATCTGACCTAACCC
850050 GCCTGATC
1 GCCTGATC
850058 CGATCCAGTC
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
19 26 1.00
ACGTcount: A:0.17, C:0.43, G:0.17, T:0.22
Consensus pattern (19 bp):
GCCTGATCTGACCTAACCC
Found at i:850090 original size:14 final size:14
Alignment explanation
Indices: 850071--850108 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
850061 TCCAGTCACT
*
850071 GAGTCAACTCGTCG
1 GAGTCAACTCGACG
*
850085 GAGTCAACTCGACT
1 GAGTCAACTCGACG
850099 GAGTCAACTC
1 GAGTCAACTC
850109 ATTAACTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.26, C:0.29, G:0.24, T:0.21
Consensus pattern (14 bp):
GAGTCAACTCGACG
Found at i:852190 original size:57 final size:56
Alignment explanation
Indices: 852082--852190 Score: 141
Period size: 58 Copynumber: 1.9 Consensus size: 56
852072 TTATGTGCTT
* *
852082 TTAGGTAAGACCTTATGGACCTGAGGGCATTCCCTCAGGTGGGTACCTACGCTTTGG
1 TTAGGTAAGACCTTATGGACCTAAGGGCA-TCCCTCAGGTGGATACCTACGCTTTGG
*
852139 TTAGGATAAGACCTTATGGACCTAAGGTGC-TCCCTTAGGTTGGAT-CCTACGC
1 TTAGG-TAAGACCTTATGGACCTAAGG-GCATCCCTCAGG-TGGATACCTACGC
852191 CCTTTTGGGC
Statistics
Matches: 46, Mismatches: 3, Indels: 6
0.84 0.05 0.11
Matches are distributed among these distances:
57 20 0.43
58 24 0.52
59 2 0.04
ACGTcount: A:0.21, C:0.23, G:0.28, T:0.28
Consensus pattern (56 bp):
TTAGGTAAGACCTTATGGACCTAAGGGCATCCCTCAGGTGGATACCTACGCTTTGG
Found at i:855874 original size:45 final size:46
Alignment explanation
Indices: 855786--855876 Score: 148
Period size: 45 Copynumber: 2.0 Consensus size: 46
855776 GAAAAAAAAC
* *
855786 CTGAGTGCATCGATGCATGGTCTTGTGCATCGATGCATCAAATGCA
1 CTGAGTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATGCA
*
855832 CTGAGTGCATCGATGCATGGT-ATGTGCATTGATGCATAAAATGCA
1 CTGAGTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATGCA
855877 TTCGATGTTT
Statistics
Matches: 42, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
45 21 0.50
46 21 0.50
ACGTcount: A:0.26, C:0.19, G:0.26, T:0.29
Consensus pattern (46 bp):
CTGAGTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATGCA
Found at i:864634 original size:45 final size:46
Alignment explanation
Indices: 864549--864636 Score: 151
Period size: 45 Copynumber: 1.9 Consensus size: 46
864539 AAAAAACCTG
* *
864549 AGTGCATCGATGCATGGTCTTGTGCATCGATGCATCAAATGCACTA
1 AGTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATGCACTA
864595 AGTGCATCGATGCATGGT-ATGTGCATCGATGCATAAAATGCA
1 AGTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATGCA
864637 TTCGATGTTT
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
45 22 0.55
46 18 0.45
ACGTcount: A:0.28, C:0.19, G:0.25, T:0.27
Consensus pattern (46 bp):
AGTGCATCGATGCATGGTCATGTGCATCGATGCATAAAATGCACTA
Found at i:866869 original size:13 final size:13
Alignment explanation
Indices: 866851--866875 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
866841 ATCCGACCAC
866851 TTTATATTTTTAT
1 TTTATATTTTTAT
866864 TTTATATTTTTA
1 TTTATATTTTTA
866876 GTTATTTTAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (13 bp):
TTTATATTTTTAT
Found at i:869551 original size:19 final size:19
Alignment explanation
Indices: 869529--869575 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 19
869519 GACCGGTCTA
* *
869529 AACCGGTTTGACCTGACCG
1 AACCGGTTTGACCCGACCC
*
869548 AACCGGTCTGACCCGACCC
1 AACCGGTTTGACCCGACCC
869567 AACCAGGTT
1 AACC-GGTT
869576 ATATTTTGGG
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 20 0.87
20 3 0.13
ACGTcount: A:0.23, C:0.36, G:0.23, T:0.17
Consensus pattern (19 bp):
AACCGGTTTGACCCGACCC
Found at i:869693 original size:30 final size:29
Alignment explanation
Indices: 869578--869749 Score: 161
Period size: 29 Copynumber: 6.0 Consensus size: 29
869568 ACCAGGTTAT
* *
869578 ATTTTGGGAATTATTTTGAAACAT-GTGAT
1 ATTTTGGGAATTATTTTTAAA-ATAGTGAC
*
869607 ATTTTGGG-ATT-TTTTTTAAATAGTGAC
1 ATTTTGGGAATTATTTTTAAAATAGTGAC
* * **
869634 ATTCTGGTAATTATTTTTAAAACGGTGAC
1 ATTTTGGGAATTATTTTTAAAATAGTGAC
* *
869663 ATTTTGGGAATTTTTTTGTAAAATAATGAC
1 ATTTTGGGAATTATTTT-TAAAATAGTGAC
* * * *
869693 ATTTTGGTAATTATTTTTAAAACAATGAT
1 ATTTTGGGAATTATTTTTAAAATAGTGAC
* * *
869722 ATTTTAGTAATTATTTTTAAAACAGTGA
1 ATTTTGGGAATTATTTTTAAAATAGTGA
869750 ATTATTTAAA
Statistics
Matches: 119, Mismatches: 20, Indels: 8
0.81 0.14 0.05
Matches are distributed among these distances:
26 2 0.02
27 16 0.13
28 6 0.05
29 71 0.60
30 24 0.20
ACGTcount: A:0.33, C:0.05, G:0.16, T:0.47
Consensus pattern (29 bp):
ATTTTGGGAATTATTTTTAAAATAGTGAC
Found at i:869726 original size:59 final size:58
Alignment explanation
Indices: 869578--869743 Score: 203
Period size: 59 Copynumber: 2.9 Consensus size: 58
869568 ACCAGGTTAT
* * *
869578 ATTTTGGGAATTA-TTTTGAAACATGTGATATTTTGGG-ATTTTTTTT-AAATAGTGAC
1 ATTTTGGTAATTATTTTTAAAACA-GTGATATTTTGGGAATTTTTTTTAAAATAATGAC
* * *
869634 ATTCTGGTAATTATTTTTAAAACGGTGACATTTTGGGAATTTTTTTGTAAAATAATGAC
1 ATTTTGGTAATTATTTTTAAAACAGTGATATTTTGGGAATTTTTTT-TAAAATAATGAC
* * * *
869693 ATTTTGGTAATTATTTTTAAAACAATGATATTTTAGTAATTATTTTTAAAA
1 ATTTTGGTAATTATTTTTAAAACAGTGATATTTTGGGAATTTTTTTTAAAA
869744 CAGTGAATTA
Statistics
Matches: 93, Mismatches: 13, Indels: 6
0.83 0.12 0.05
Matches are distributed among these distances:
56 23 0.25
57 16 0.17
58 6 0.06
59 48 0.52
ACGTcount: A:0.33, C:0.04, G:0.15, T:0.48
Consensus pattern (58 bp):
ATTTTGGTAATTATTTTTAAAACAGTGATATTTTGGGAATTTTTTTTAAAATAATGAC
Found at i:869762 original size:19 final size:19
Alignment explanation
Indices: 869730--869768 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
869720 ATATTTTAGT
** *
869730 AATTATTTTTAAAACAGTG
1 AATTATTTAAAAAAAAGTG
869749 AATTATTTAAAAAAAAGTG
1 AATTATTTAAAAAAAAGTG
869768 A
1 A
869769 TATTTTTGTA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.51, C:0.03, G:0.10, T:0.36
Consensus pattern (19 bp):
AATTATTTAAAAAAAAGTG
Found at i:870863 original size:25 final size:25
Alignment explanation
Indices: 870811--870863 Score: 79
Period size: 25 Copynumber: 2.1 Consensus size: 25
870801 AGGGTAACTC
*
870811 TTTTATGAGATTTACTGCAGTATAA
1 TTTTATGAGATTTACTGCACTATAA
* *
870836 TTTTATGAGATTTACTGGACTATGA
1 TTTTATGAGATTTACTGCACTATAA
870861 TTT
1 TTT
870864 GTTTAGTGTA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 25 1.00
ACGTcount: A:0.28, C:0.08, G:0.17, T:0.47
Consensus pattern (25 bp):
TTTTATGAGATTTACTGCACTATAA
Found at i:877104 original size:29 final size:29
Alignment explanation
Indices: 877031--877163 Score: 107
Period size: 29 Copynumber: 4.7 Consensus size: 29
877021 CCCTGTGATA
* * *
877031 TTTTAAAA-AGGTGACATTTTGGGAATTTT
1 TTTTAAAACA-GTGATATTTTGGTAATTAT
877060 TTTGTAAAACA---A-ATTTTGGTAATTAT
1 TTT-TAAAACAGTGATATTTTGGTAATTAT
*
877086 TTTTAAAACAGTGATATTTTAGTAATTAT
1 TTTTAAAACAGTGATATTTTGGTAATTAT
* * * *
877115 TTTTAAAATAATGATATTCTGGAAATTA-
1 TTTTAAAACAGTGATATTTTGGTAATTAT
* *
877143 TTTAAAAAAAGATGATATTTT
1 TTTTAAAACAG-TGATATTTT
877164 TATAATTTTC
Statistics
Matches: 85, Mismatches: 12, Indels: 14
0.77 0.11 0.13
Matches are distributed among these distances:
25 7 0.08
26 15 0.18
27 1 0.01
28 9 0.11
29 47 0.55
30 5 0.06
31 1 0.01
ACGTcount: A:0.39, C:0.03, G:0.13, T:0.45
Consensus pattern (29 bp):
TTTTAAAACAGTGATATTTTGGTAATTAT
Found at i:879146 original size:43 final size:42
Alignment explanation
Indices: 879070--879163 Score: 143
Period size: 43 Copynumber: 2.2 Consensus size: 42
879060 TCGATGAGAA
879070 ATTCGTTTATTTATTAACGTACAAACAAGAATTAGATTATAT
1 ATTCGTTTATTTATTAACGTACAAACAAGAATTAGATTATAT
* * * *
879112 GTTCGTTTATTTATTAAACGTACGAACATGAATTAGATTTTAT
1 ATTCGTTTATTTATT-AACGTACAAACAAGAATTAGATTATAT
879155 ATTCGTTTA
1 ATTCGTTTA
879164 ATTAAATGAA
Statistics
Matches: 46, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
42 14 0.30
43 32 0.70
ACGTcount: A:0.35, C:0.10, G:0.12, T:0.44
Consensus pattern (42 bp):
ATTCGTTTATTTATTAACGTACAAACAAGAATTAGATTATAT
Found at i:880854 original size:267 final size:264
Alignment explanation
Indices: 880477--880982 Score: 879
Period size: 267 Copynumber: 1.9 Consensus size: 264
880467 GCCAATAAGT
880477 GCTACATGTGTTGAATATTCCATTTCAATCCATCTATAGAGCAAGAGGGAGGGGAACATCCTATG
1 GCTACATGTGTTGAATATTCCATTTCAATCCATCTATAGAGCAAGAGGGAGGGGAACATCCTATG
*
880542 CTATAAATGCGTAAAGAAGACAGGCAATTTAATGTTATAAATAAAAATAGTAAATATTAAAAATT
66 CTATAAATACGTAAAGAAGACAGGCAATTTAATGTTATAAATAAAAATAGTAAATATTAAAAATT
* * *
880607 TAATTTCACATATATATATTTTAAATATATTATATGGAGTAACCTGATTAAATTAAAAATAATCC
131 TAATTTCACATATAT-T-TTTAAAAAATATTATATGGAGTAACCAGATTAAATTAAAAATAATCC
* *
880672 GTAGATGTAATGATATGGTAGCTAGTTGCCACTGATTTTGACATTAATTGTTAAGCCAATAAGTC
194 ATAGATGTAACGATATGGTAGCTAGTTGCCACTGATTTTGACATTAATTGTTAAGCCAATAAGTC
880737 ACTATA
259 ACTATA
880743 GCTACATGTGTTGAATATGT-CATTTCAATCCATCTATAGAGCAAGAGGGAGGGGAAACATCCTA
1 GCTACATGTGTTGAATAT-TCCATTTCAATCCATCTATAGAGCAAGAGGGAGGGG-AACATCCTA
*
880807 TGCTATAAATACTTAAAGAAGACAGGCAATTTAATGTTATAAATAAAAATAGTAAATATTAAAAA
64 TGCTATAAATACGTAAAGAAGACAGGCAATTTAATGTTATAAATAAAAATAGTAAATATTAAAAA
*
880872 TTTAATTTCACATATATTTTTAAAAAATATTATATGGAGTAACCAGATTAAATTAAAATTAATCC
129 TTTAATTTCACATATATTTTTAAAAAATATTATATGGAGTAACCAGATTAAATTAAAAATAATCC
* *
880937 ATAGATGTAACGGTATGGTAGTTAGTTGCCACTGATTTTGACATTA
194 ATAGATGTAACGATATGGTAGCTAGTTGCCACTGATTTTGACATTA
880983 TTACATGTGC
Statistics
Matches: 228, Mismatches: 10, Indels: 5
0.94 0.04 0.02
Matches are distributed among these distances:
265 85 0.37
266 53 0.23
267 90 0.39
ACGTcount: A:0.40, C:0.11, G:0.15, T:0.33
Consensus pattern (264 bp):
GCTACATGTGTTGAATATTCCATTTCAATCCATCTATAGAGCAAGAGGGAGGGGAACATCCTATG
CTATAAATACGTAAAGAAGACAGGCAATTTAATGTTATAAATAAAAATAGTAAATATTAAAAATT
TAATTTCACATATATTTTTAAAAAATATTATATGGAGTAACCAGATTAAATTAAAAATAATCCAT
AGATGTAACGATATGGTAGCTAGTTGCCACTGATTTTGACATTAATTGTTAAGCCAATAAGTCAC
TATA
Found at i:881797 original size:9 final size:9
Alignment explanation
Indices: 881783--881807 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
881773 ATTAATGATT
881783 AAAAAATTA
1 AAAAAATTA
881792 AAAAAATTA
1 AAAAAATTA
881801 AAAAAAT
1 AAAAAAT
881808 ATTATTTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (9 bp):
AAAAAATTA
Found at i:882529 original size:42 final size:43
Alignment explanation
Indices: 882481--882574 Score: 136
Period size: 43 Copynumber: 2.2 Consensus size: 43
882471 TCGACGGGAA
* *
882481 ATTCGTTTATTTATT-AACTTACAAACATGAATTAGATTCTAT
1 ATTCGTTTATTTATTAAACGTACAAACATAAATTAGATTCTAT
* * *
882523 GTTCGTTTATTTATTAAACGTACGAACATAAATTAGATTTTAT
1 ATTCGTTTATTTATTAAACGTACAAACATAAATTAGATTCTAT
882566 ATTCGTTTA
1 ATTCGTTTA
882575 ATTAAGTGAA
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
42 14 0.31
43 31 0.69
ACGTcount: A:0.34, C:0.11, G:0.10, T:0.46
Consensus pattern (43 bp):
ATTCGTTTATTTATTAAACGTACAAACATAAATTAGATTCTAT
Found at i:883799 original size:68 final size:68
Alignment explanation
Indices: 883719--883984 Score: 391
Period size: 68 Copynumber: 4.0 Consensus size: 68
883709 ATTAGGGTTT
*
883719 TTTAGGGTAAACTACCTATTTGGTCACTTAAATATTATCTAATTTATGTTTTAGTCACTCGATTA
1 TTTAGGGTAAACTACCTATTTGGTCACTTATATATTATCTAATTTATGTTTTAGTCACTCGATTA
883784 TTA
66 TTA
* * * *
883787 TTTAGGATAAACTAACTATTTGGTCACTTATATATTATCTAATTTATGTTTTGGTCACTCAATTA
1 TTTAGGGTAAACTACCTATTTGGTCACTTATATATTATCTAATTTATGTTTTAGTCACTCGATTA
883852 TTA
66 TTA
* **
883855 TTTAGGGTAAACTACCTATTTGGTCACTTATATATTATCTAATATAAT-TCATA-T-A-T--ATT
1 TTTAGGGTAAACTACCTATTTGGTCACTTATATATTATCTAAT-TTATGTTTTAGTCACTCGATT
*
883914 TTTA
65 ATTA
*
883918 TTTAGGGTAAACTACCTATTTGGTCACTTATATATTATCTAATTTATGTTTTGGTCACTCGATTA
1 TTTAGGGTAAACTACCTATTTGGTCACTTATATATTATCTAATTTATGTTTTAGTCACTCGATTA
883983 TT
66 TT
883985 TTTTTTTCAA
Statistics
Matches: 174, Mismatches: 17, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
62 3 0.02
63 51 0.29
64 1 0.01
65 2 0.01
66 2 0.01
67 1 0.01
68 111 0.64
69 3 0.02
ACGTcount: A:0.30, C:0.12, G:0.11, T:0.47
Consensus pattern (68 bp):
TTTAGGGTAAACTACCTATTTGGTCACTTATATATTATCTAATTTATGTTTTAGTCACTCGATTA
TTA
Found at i:883823 original size:37 final size:37
Alignment explanation
Indices: 883782--883892 Score: 101
Period size: 37 Copynumber: 3.2 Consensus size: 37
883772 GTCACTCGAT
883782 TATTATTTAGGATAAACTAACTATTTGGTCACTTATA
1 TATTATTTAGGATAAACTAACTATTTGGTCACTTATA
* * ** *
883819 TATTATCTA--AT---TTATGT-TTTGGTCACTCA-A
1 TATTATTTAGGATAAACTAACTATTTGGTCACTTATA
* *
883849 TTATTATTTAGGGTAAACTACCTATTTGGTCACTTATA
1 -TATTATTTAGGATAAACTAACTATTTGGTCACTTATA
883887 TATTAT
1 TATTAT
883893 CTAATATAAT
Statistics
Matches: 55, Mismatches: 11, Indels: 16
0.67 0.13 0.20
Matches are distributed among these distances:
30 1 0.02
31 19 0.35
32 3 0.05
33 1 0.02
35 2 0.04
36 3 0.05
37 25 0.45
38 1 0.02
ACGTcount: A:0.31, C:0.12, G:0.11, T:0.47
Consensus pattern (37 bp):
TATTATTTAGGATAAACTAACTATTTGGTCACTTATA
Found at i:883854 original size:31 final size:31
Alignment explanation
Indices: 883737--883855 Score: 87
Period size: 31 Copynumber: 3.6 Consensus size: 31
883727 AAACTACCTA
* *
883737 TTTGGTCACTTAAATATTATCTAATTTATGT
1 TTTGGTCACTCAATTATTATCTAATTTATGT
* * * * **
883768 TTTAGTCACTCGATTATTATTTAGGATAAACTAACT
1 TTTGGTCACTCAATTATTATCTA--AT---TTATGT
*
883804 ATTTGGTCACT-TATATATTATCTAATTTATGT
1 -TTTGGTCACTCAAT-TATTATCTAATTTATGT
883836 TTTGGTCACTCAATTATTAT
1 TTTGGTCACTCAATTATTAT
883856 TTAGGGTAAA
Statistics
Matches: 65, Mismatches: 15, Indels: 16
0.68 0.16 0.17
Matches are distributed among these distances:
31 34 0.52
32 5 0.08
33 2 0.03
35 2 0.03
36 5 0.08
37 17 0.26
ACGTcount: A:0.29, C:0.12, G:0.10, T:0.49
Consensus pattern (31 bp):
TTTGGTCACTCAATTATTATCTAATTTATGT
Found at i:883958 original size:131 final size:135
Alignment explanation
Indices: 883719--883984 Score: 407
Period size: 131 Copynumber: 2.0 Consensus size: 135
883709 ATTAGGGTTT
* **
883719 TTTAGGGTAAACTACCTATTTGGTCACTTAAATATTATCTAATTTATGTTTTAGTCACTCGATTA
1 TTTAGGGTAAACTACCTATTTGGTCACTTAAATATTATCTAATTAATGTCATAGTCACTC-ATTA
883784 TTATTTAGGATAAACTAACTATTTGGTCACTTATATATTATCTAATTTATGTTTTGGTCACTCAA
65 TTATTTAGGATAAACTAACTATTTGGTCACTTATATATTATCTAATTTATGTTTTGGTCACTCAA
883849 TTATTA
130 TTATTA
* *
883855 TTTAGGGTAAACTACCTATTTGGTCACTTATATATTATCTAATATAAT-TCATA-T-A-T-ATTT
1 TTTAGGGTAAACTACCTATTTGGTCACTTAAATATTATCTAAT-TAATGTCATAGTCACTCATTA
* * *
883915 TTATTTAGGGTAAACTACCTATTTGGTCACTTATATATTATCTAATTTATGTTTTGGTCACTCGA
65 TTATTTAGGATAAACTAACTATTTGGTCACTTATATATTATCTAATTTATGTTTTGGTCACTCAA
883980 TTATT
130 TTATT
883985 TTTTTTTCAA
Statistics
Matches: 121, Mismatches: 8, Indels: 7
0.89 0.06 0.05
Matches are distributed among these distances:
131 70 0.58
133 1 0.01
134 1 0.01
135 1 0.01
136 45 0.37
137 3 0.02
ACGTcount: A:0.30, C:0.12, G:0.11, T:0.47
Consensus pattern (135 bp):
TTTAGGGTAAACTACCTATTTGGTCACTTAAATATTATCTAATTAATGTCATAGTCACTCATTAT
TATTTAGGATAAACTAACTATTTGGTCACTTATATATTATCTAATTTATGTTTTGGTCACTCAAT
TATTA
Done.