Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_018397272.1 Herrania umbratica cultivar Fairchild unplaced genomic scaffold, ASM216827v2 scaffold_12.0, 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: 3572271
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 44823 characters in sequence are not A, C, G, or T
File 2 of 9
Found at i:367985 original size:21 final size:22
Alignment explanation
Indices: 367961--368014 Score: 85
Period size: 21 Copynumber: 2.5 Consensus size: 22
367951 TAACAAAGTA
367961 AAAG-AGAAAGAAAGAAAGGAG
1 AAAGAAGAAAGAAAGAAAGGAG
*
367982 AAAGAAGAAA-AGAGAAAGGAG
1 AAAGAAGAAAGAAAGAAAGGAG
368003 AAAGAAGAAAGA
1 AAAGAAGAAAGA
368015 GTTGAGTGAA
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
21 24 0.80
22 6 0.20
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (22 bp):
AAAGAAGAAAGAAAGAAAGGAG
Found at i:367989 original size:14 final size:14
Alignment explanation
Indices: 367964--368014 Score: 66
Period size: 14 Copynumber: 3.6 Consensus size: 14
367954 CAAAGTAAAA
367964 GAGAAAGAAAGAAAG
1 GAGAAAG-AAGAAAG
*
367979 GAGAAAGAAGAAAA
1 GAGAAAGAAGAAAG
*
367993 GAGAAAGGAGAAAG
1 GAGAAAGAAGAAAG
*
368007 AAGAAAGA
1 GAGAAAGA
368015 GTTGAGTGAA
Statistics
Matches: 31, Mismatches: 5, Indels: 1
0.84 0.14 0.03
Matches are distributed among these distances:
14 24 0.77
15 7 0.23
ACGTcount: A:0.67, C:0.00, G:0.33, T:0.00
Consensus pattern (14 bp):
GAGAAAGAAGAAAG
Found at i:368014 original size:7 final size:7
Alignment explanation
Indices: 367961--368014 Score: 58
Period size: 7 Copynumber: 7.7 Consensus size: 7
367951 TAACAAAGTA
367961 AAAG-AG
1 AAAGAAG
367967 AAAGAAAG
1 AAAG-AAG
*
367975 AAAGGAG
1 AAAGAAG
367982 AAAGAAG
1 AAAGAAG
367989 AAA-AGAG
1 AAAGA-AG
*
367996 AAAGGAG
1 AAAGAAG
368003 AAAGAAG
1 AAAGAAG
368010 AAAGA
1 AAAGA
368015 GTTGAGTGAA
Statistics
Matches: 40, Mismatches: 4, Indels: 7
0.78 0.08 0.14
Matches are distributed among these distances:
6 5 0.12
7 29 0.73
8 6 0.15
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (7 bp):
AAAGAAG
Found at i:376243 original size:2 final size:2
Alignment explanation
Indices: 376236--376273 Score: 67
Period size: 2 Copynumber: 18.5 Consensus size: 2
376226 GTGTATACTG
376236 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TGA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T-A TA TA T
376274 GTAAAGTGTT
Statistics
Matches: 35, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
2 33 0.94
3 2 0.06
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
TA
Found at i:377740 original size:14 final size:14
Alignment explanation
Indices: 377709--377749 Score: 55
Period size: 14 Copynumber: 2.8 Consensus size: 14
377699 CTTTGAAAGT
377709 AAAGAGAGAAAGGAAG
1 AAAG-GAGAAA-GAAG
377725 AAAGGAGAAAGAAG
1 AAAGGAGAAAGAAG
*
377739 AAAAGAGAAAG
1 AAAGGAGAAAG
377750 GGAGGTTTGA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
14 14 0.58
15 6 0.25
16 4 0.17
ACGTcount: A:0.66, C:0.00, G:0.34, T:0.00
Consensus pattern (14 bp):
AAAGGAGAAAGAAG
Found at i:379144 original size:27 final size:25
Alignment explanation
Indices: 379115--379170 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
379105 GTTCTGTGAT
* *
379115 ATATACATGGCAAGGCCATGAGTTG
1 ATATATATGGCAAGGCCATAAGTTG
* *
379140 ATATATGTGGCTAGGCCATAAGTTG
1 ATATATATGGCAAGGCCATAAGTTG
379165 ATATAT
1 ATATAT
379171 GTGGTTACGA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.32, C:0.12, G:0.25, T:0.30
Consensus pattern (25 bp):
ATATATATGGCAAGGCCATAAGTTG
Found at i:379150 original size:25 final size:25
Alignment explanation
Indices: 379122--379174 Score: 88
Period size: 25 Copynumber: 2.1 Consensus size: 25
379112 GATATATACA
*
379122 TGGCAAGGCCATGAGTTGATATATG
1 TGGCAAGGCCATAAGTTGATATATG
*
379147 TGGCTAGGCCATAAGTTGATATATG
1 TGGCAAGGCCATAAGTTGATATATG
379172 TGG
1 TGG
379175 TTACGACCAC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.26, C:0.11, G:0.32, T:0.30
Consensus pattern (25 bp):
TGGCAAGGCCATAAGTTGATATATG
Found at i:394930 original size:56 final size:55
Alignment explanation
Indices: 394812--394942 Score: 140
Period size: 56 Copynumber: 2.3 Consensus size: 55
394802 TTTCTCCTCA
* * * *
394812 TTTTACTTTATTTGGCCACCCTTTTAGACCAATCAAAACACACGCATCCTTATTC
1 TTTTATTTTATTTGGCCACCCTTTGAGACCAATCAAAACACACGCATCCTCATCC
* * *
394867 TTCTTATTTTATTTAGCCACCCTTTCGA-ACCAATCAGAACACATGCATCAACTCA-CC
1 TT-TTATTTTATTTGGCCACCCTTT-GAGACCAATCAAAACACACGCATC--CTCATCC
394924 TTTTATTTTCATTTGGCCA
1 TTTTATTTT-ATTTGGCCA
394943 TTTTGCCATT
Statistics
Matches: 63, Mismatches: 8, Indels: 8
0.80 0.10 0.10
Matches are distributed among these distances:
55 2 0.03
56 46 0.73
57 12 0.19
58 3 0.05
ACGTcount: A:0.27, C:0.28, G:0.08, T:0.37
Consensus pattern (55 bp):
TTTTATTTTATTTGGCCACCCTTTGAGACCAATCAAAACACACGCATCCTCATCC
Found at i:396619 original size:76 final size:77
Alignment explanation
Indices: 396538--396722 Score: 223
Period size: 77 Copynumber: 2.4 Consensus size: 77
396528 AAGTAGGAAA
* *
396538 CTATTTCCTATGAAT-TTCTC-AAATTAAAATACTATCCTTAATTTTAGGAATTTCTTTTAAAGT
1 CTATTTCCTATGAATCATC-CAAAATTAAAATACTATCCTTAATTTTAGGAATTTCTTTTAAAAT
*
396601 AAGAAACAATTTT
65 AAGAAACAATTTC
** *
396614 CTATTTTTTATGAATCATCCAAAATTAAAATTCTATCCTTAATTTTAGGAATTTCTTTTAAAATA
1 CTATTTCCTATGAATCATCCAAAATTAAAATACTATCCTTAATTTTAGGAATTTCTTTTAAAATA
* *
396679 GGAAGCAATTTC
66 AGAAACAATTTC
** * *
396691 CTATTTTTTTTGAATCA-CCTAAAACTAAAATA
1 CTATTTCCTATGAATCATCC-AAAATTAAAATA
396723 GATGGCATTT
Statistics
Matches: 95, Mismatches: 11, Indels: 5
0.86 0.10 0.05
Matches are distributed among these distances:
76 16 0.17
77 79 0.83
ACGTcount: A:0.37, C:0.14, G:0.06, T:0.43
Consensus pattern (77 bp):
CTATTTCCTATGAATCATCCAAAATTAAAATACTATCCTTAATTTTAGGAATTTCTTTTAAAATA
AGAAACAATTTC
Found at i:396650 original size:77 final size:77
Alignment explanation
Indices: 396558--396722 Score: 251
Period size: 77 Copynumber: 2.1 Consensus size: 77
396548 TGAATTTCTC
* *
396558 AAATTAAAATACTATCCTTAATTTTAGGAATTTCTTTTAAAGTAAGAAACAATTTTCTATTTTTT
1 AAATTAAAATACTATCCTTAATTTTAGGAATTTCTTTTAAAATAAGAAACAATTTCCTATTTTTT
396623 ATGAATCATCC-A
66 ATGAATCA-CCTA
* * *
396635 AAATTAAAATTCTATCCTTAATTTTAGGAATTTCTTTTAAAATAGGAAGCAATTTCCTATTTTTT
1 AAATTAAAATACTATCCTTAATTTTAGGAATTTCTTTTAAAATAAGAAACAATTTCCTATTTTTT
*
396700 TTGAATCACCTA
66 ATGAATCACCTA
*
396712 AAACTAAAATA
1 AAATTAAAATA
396723 GATGGCATTT
Statistics
Matches: 79, Mismatches: 8, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
76 2 0.03
77 77 0.97
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.42
Consensus pattern (77 bp):
AAATTAAAATACTATCCTTAATTTTAGGAATTTCTTTTAAAATAAGAAACAATTTCCTATTTTTT
ATGAATCACCTA
Found at i:399987 original size:17 final size:17
Alignment explanation
Indices: 399947--399979 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
399937 CATGTTTATA
399947 CAACTACCATCTCAATG
1 CAACTACCATCTCAATG
*
399964 CAACTACCTTCTCAAT
1 CAACTACCATCTCAAT
399980 TGCACTACAC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.33, C:0.36, G:0.03, T:0.27
Consensus pattern (17 bp):
CAACTACCATCTCAATG
Found at i:400751 original size:17 final size:17
Alignment explanation
Indices: 400721--400753 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
400711 TTCTTAATAA
400721 AATAAAACTCCTTGTTG
1 AATAAAACTCCTTGTTG
400738 AATAATAACT-CTTGTT
1 AATAA-AACTCCTTGTT
400754 TTATTATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.36, C:0.15, G:0.09, T:0.39
Consensus pattern (17 bp):
AATAAAACTCCTTGTTG
Found at i:403509 original size:21 final size:22
Alignment explanation
Indices: 403484--403527 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 22
403474 AAGTAATTAA
403484 TTTAAGTTATTTTA-GTTAAAT
1 TTTAAGTTATTTTATGTTAAAT
*
403505 TTTAAGTTATTTTATTTTAAAT
1 TTTAAGTTATTTTATGTTAAAT
403527 T
1 T
403528 ACTTTAAGAG
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
21 14 0.67
22 7 0.33
ACGTcount: A:0.32, C:0.00, G:0.07, T:0.61
Consensus pattern (22 bp):
TTTAAGTTATTTTATGTTAAAT
Found at i:405264 original size:7 final size:7
Alignment explanation
Indices: 405252--405282 Score: 62
Period size: 7 Copynumber: 4.4 Consensus size: 7
405242 CATAGTTAAT
405252 CCTAAAC
1 CCTAAAC
405259 CCTAAAC
1 CCTAAAC
405266 CCTAAAC
1 CCTAAAC
405273 CCTAAAC
1 CCTAAAC
405280 CCT
1 CCT
405283 TGGCCATTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 24 1.00
ACGTcount: A:0.39, C:0.45, G:0.00, T:0.16
Consensus pattern (7 bp):
CCTAAAC
Found at i:408969 original size:2 final size:2
Alignment explanation
Indices: 408962--408990 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
408952 CTAGGCAGTC
408962 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
408991 CATACATACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:410903 original size:49 final size:49
Alignment explanation
Indices: 410848--410949 Score: 186
Period size: 49 Copynumber: 2.1 Consensus size: 49
410838 TAATGAATTG
*
410848 AATTGTTTATTCTAATTTATTCTGAATGCTTCTTAGTTGATTAACCACC
1 AATTGTTTAGTCTAATTTATTCTGAATGCTTCTTAGTTGATTAACCACC
*
410897 AATTGTTTAGTCTAATTTATTCTTAATGCTTCTTAGTTGATTAACCACC
1 AATTGTTTAGTCTAATTTATTCTGAATGCTTCTTAGTTGATTAACCACC
410946 AATT
1 AATT
410950 AAATTTATTT
Statistics
Matches: 51, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 51 1.00
ACGTcount: A:0.27, C:0.16, G:0.10, T:0.47
Consensus pattern (49 bp):
AATTGTTTAGTCTAATTTATTCTGAATGCTTCTTAGTTGATTAACCACC
Found at i:414716 original size:28 final size:29
Alignment explanation
Indices: 414655--414827 Score: 179
Period size: 29 Copynumber: 5.9 Consensus size: 29
414645 TTAAGACAAC
* *
414655 TCTTGTCTTTAATTAAGACAAAACATGTTA
1 TCTTGTC-TAAATTAAGACAAAACATGTTT
*
414685 TCTTGTCTAAATTGAGAC-AAACATGTTT
1 TCTTGTCTAAATTAAGACAAAACATGTTT
* * ** * *
414713 TCTTTTCTAGATCCAGACAAAATATATTTT
1 TCTTGTCTAAATTAAGACAAAACAT-GTTT
* *
414743 TCTTGTCTTTAATTAAGAC-AAACATATTT
1 TCTTGTC-TAAATTAAGACAAAACATGTTT
*
414772 TCTTATCTAAATTAAGACAAAACATGTTT
1 TCTTGTCTAAATTAAGACAAAACATGTTT
* *
414801 TATTATCTAAATTAAGACAAAACATGT
1 TCTTGTCTAAATTAAGACAAAACATGT
414828 AAAAGCTACC
Statistics
Matches: 119, Mismatches: 20, Indels: 9
0.80 0.14 0.06
Matches are distributed among these distances:
28 33 0.28
29 58 0.49
30 21 0.18
31 7 0.06
ACGTcount: A:0.38, C:0.14, G:0.09, T:0.40
Consensus pattern (29 bp):
TCTTGTCTAAATTAAGACAAAACATGTTT
Found at i:414790 original size:59 final size:57
Alignment explanation
Indices: 414665--414821 Score: 179
Period size: 59 Copynumber: 2.7 Consensus size: 57
414655 TCTTGTCTTT
* * *
414665 AATTAAGACAAAACATGTTATCTTGTCTAAATTGAGACAAACATGTTTTCTTTTCTA
1 AATTAAGACAAAACATGTTATCTTGTCTAAATTAAGACAAACATATTTTCTTATCTA
* ** * * * *
414722 GATCCAGACAAAATATATTTTTCTTGTCTTTAATTAAGACAAACATATTTTCTTATCTA
1 AATTAAGACAAAACAT-GTTATCTTGTC-TAAATTAAGACAAACATATTTTCTTATCTA
* * *
414781 AATTAAGACAAAACATGTTTTATTATCTAAATTAAGACAAA
1 AATTAAGACAAAACATGTTATCTTGTCTAAATTAAGACAAA
414822 ACATGTAAAA
Statistics
Matches: 80, Mismatches: 18, Indels: 4
0.78 0.18 0.04
Matches are distributed among these distances:
57 25 0.31
58 17 0.21
59 38 0.47
ACGTcount: A:0.40, C:0.13, G:0.08, T:0.38
Consensus pattern (57 bp):
AATTAAGACAAAACATGTTATCTTGTCTAAATTAAGACAAACATATTTTCTTATCTA
Found at i:414819 original size:88 final size:88
Alignment explanation
Indices: 414655--414822 Score: 239
Period size: 88 Copynumber: 1.9 Consensus size: 88
414645 TTAAGACAAC
* * * * *
414655 TCTTGTCTTTAATTAAGACAAAACATGTTATCTTGTCTAAATTGAGACAAACATGTTTTCTTTTC
1 TCTTGTCTTTAATTAAGACAAAACATATTATCTTATCTAAATTAAGACAAACATGTTTTATTATC
* *
414720 TAGATCCAGACAAAATATATTTT
66 TAAATCAAGACAAAATATATTTT
*
414743 TCTTGTCTTTAATTAAGAC-AAACATATTTTCTTATCTAAATTAAGACAAAACATGTTTTATTAT
1 TCTTGTCTTTAATTAAGACAAAACATATTATCTTATCTAAATTAAGAC-AAACATGTTTTATTAT
*
414807 CTAAATTAAGACAAAA
65 CTAAATCAAGACAAAA
414823 CATGTAAAAG
Statistics
Matches: 70, Mismatches: 9, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
87 24 0.34
88 46 0.66
ACGTcount: A:0.38, C:0.14, G:0.08, T:0.40
Consensus pattern (88 bp):
TCTTGTCTTTAATTAAGACAAAACATATTATCTTATCTAAATTAAGACAAACATGTTTTATTATC
TAAATCAAGACAAAATATATTTT
Found at i:430785 original size:28 final size:28
Alignment explanation
Indices: 430745--430806 Score: 81
Period size: 28 Copynumber: 2.2 Consensus size: 28
430735 TAGAAGTCTG
*
430745 ATTCTAATGATGTTTCAGTTGTTTAGGA-
1 ATTCTGATGATGTTT-AGTTGTTTAGGAC
* *
430773 ATTCTGATTATGTTTAGTTGTTTATGAC
1 ATTCTGATGATGTTTAGTTGTTTAGGAC
430801 ATTCTG
1 ATTCTG
430807 CAATGTTGAT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
27 11 0.37
28 19 0.63
ACGTcount: A:0.23, C:0.08, G:0.19, T:0.50
Consensus pattern (28 bp):
ATTCTGATGATGTTTAGTTGTTTAGGAC
Found at i:433475 original size:20 final size:20
Alignment explanation
Indices: 433450--433492 Score: 86
Period size: 20 Copynumber: 2.1 Consensus size: 20
433440 TGTTTCAGTG
433450 TTTGGAAAATAAGGCTTAAT
1 TTTGGAAAATAAGGCTTAAT
433470 TTTGGAAAATAAGGCTTAAT
1 TTTGGAAAATAAGGCTTAAT
433490 TTT
1 TTT
433493 CGCTACAAAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 23 1.00
ACGTcount: A:0.37, C:0.05, G:0.19, T:0.40
Consensus pattern (20 bp):
TTTGGAAAATAAGGCTTAAT
Found at i:438324 original size:2 final size:2
Alignment explanation
Indices: 438319--438344 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
438309 CCTTTTGTAT
438319 GA GA GA GA GA GA GA GA GA GA GA GA GA
1 GA GA GA GA GA GA GA GA GA GA GA GA GA
438345 AATCATTAAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.50, T:0.00
Consensus pattern (2 bp):
GA
Found at i:456200 original size:13 final size:14
Alignment explanation
Indices: 456178--456206 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
456168 TATTAAAAAG
456178 ATAAATTAAAACTA
1 ATAAATTAAAACTA
456192 ATAAA-TAAAACTA
1 ATAAATTAAAACTA
456205 AT
1 AT
456207 CTAAAATCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.67
14 5 0.33
ACGTcount: A:0.66, C:0.07, G:0.00, T:0.28
Consensus pattern (14 bp):
ATAAATTAAAACTA
Found at i:459075 original size:14 final size:15
Alignment explanation
Indices: 459056--459084 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
459046 TATCCTATGT
459056 ATTATTAT-GTTATA
1 ATTATTATAGTTATA
459070 ATTATTATAGTTATA
1 ATTATTATAGTTATA
459085 TATACACTAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 8 0.57
15 6 0.43
ACGTcount: A:0.38, C:0.00, G:0.07, T:0.55
Consensus pattern (15 bp):
ATTATTATAGTTATA
Found at i:459609 original size:34 final size:34
Alignment explanation
Indices: 459535--459611 Score: 84
Period size: 34 Copynumber: 2.2 Consensus size: 34
459525 TTTTATATAT
* * *
459535 ATTTTAATAATCATATTCATATCAGATATGAGATA
1 ATTTTAGT-ATCAAATTCATATCAGATATGAAATA
*
459570 ATTTTAGTATCAAATTCATAT-ATGATATGAAATT
1 ATTTTAGTATCAAATTCATATCA-GATATGAAATA
*
459604 GTTTTAGT
1 ATTTTAGT
459612 TACTTTTTTT
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
33 1 0.03
34 28 0.78
35 7 0.19
ACGTcount: A:0.39, C:0.06, G:0.10, T:0.44
Consensus pattern (34 bp):
ATTTTAGTATCAAATTCATATCAGATATGAAATA
Found at i:463904 original size:2 final size:2
Alignment explanation
Indices: 463897--463938 Score: 57
Period size: 2 Copynumber: 21.0 Consensus size: 2
463887 ACATAATGAC
* * *
463897 TA TA TA TA AA TA CA AA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
463939 CACACACACT
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (2 bp):
TA
Found at i:468502 original size:109 final size:110
Alignment explanation
Indices: 468349--468554 Score: 315
Period size: 109 Copynumber: 1.9 Consensus size: 110
468339 GTTAAAATGG
** * * *
468349 CATGTTTTTGTTAACATTTTTCATTGTAAACATGTATGGGAATTAGTCTTGATT-TTACATTTTC
1 CATGTTTGGGTTAACATTTTTCATTGTAAACATGAATGGAAATTAGTCTTAATTCTTACATTTTC
*
468413 ATGATGATTTTGATAGTTTGTTTCAATTTCTTTTAGCATGGCTTC
66 ATGATGATTTTGATACTTTGTTTCAATTTCTTTTAGCATGGCTTC
* * *
468458 CATGTTTGGGTTAACATTTTTTATTGTAAACATGAATGGAAATTAGTCTTAATTCTTATATTTTG
1 CATGTTTGGGTTAACATTTTTCATTGTAAACATGAATGGAAATTAGTCTTAATTCTTACATTTTC
*
468523 GTGATGATTTTGATACTTTGTTTCAATTTCTT
66 ATGATGATTTTGATACTTTGTTTCAATTTCTT
468555 AAAGTTTATG
Statistics
Matches: 86, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
109 48 0.56
110 38 0.44
ACGTcount: A:0.24, C:0.10, G:0.16, T:0.50
Consensus pattern (110 bp):
CATGTTTGGGTTAACATTTTTCATTGTAAACATGAATGGAAATTAGTCTTAATTCTTACATTTTC
ATGATGATTTTGATACTTTGTTTCAATTTCTTTTAGCATGGCTTC
Found at i:470672 original size:26 final size:25
Alignment explanation
Indices: 470620--470676 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 25
470610 AAAATCTATT
*
470620 GTAAATTTCCAACGAAAAATTCGTTG
1 GTAAA-TTCCAACGAAAAATTCATTG
*
470646 GTAAATTCCAACTAAAAATTCCATTG
1 GTAAATTCCAACGAAAAATT-CATTG
470672 G-AAAT
1 GTAAAT
470677 CCATTAGTAA
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
25 18 0.64
26 10 0.36
ACGTcount: A:0.42, C:0.16, G:0.12, T:0.30
Consensus pattern (25 bp):
GTAAATTCCAACGAAAAATTCATTG
Found at i:472361 original size:22 final size:21
Alignment explanation
Indices: 472336--472396 Score: 58
Period size: 20 Copynumber: 3.0 Consensus size: 21
472326 TTATGAACAT
472336 TATACATCATAATTTATATATG
1 TATA-ATCATAATTTATATATG
472358 TATAAT-ATAATATT-TATA-G
1 TATAATCATAAT-TTATATATG
*
472377 -ATAATCATAATATATTATAT
1 TATAATCATAATTTA-TATAT
472397 ATTTTGTATA
Statistics
Matches: 33, Mismatches: 1, Indels: 11
0.73 0.02 0.24
Matches are distributed among these distances:
18 6 0.18
19 6 0.18
20 13 0.39
21 4 0.12
22 4 0.12
ACGTcount: A:0.46, C:0.05, G:0.03, T:0.46
Consensus pattern (21 bp):
TATAATCATAATTTATATATG
Found at i:486776 original size:2 final size:2
Alignment explanation
Indices: 486769--486794 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
486759 TTGGGTCCAA
486769 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
486795 TGTTTTTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:495112 original size:10 final size:10
Alignment explanation
Indices: 495097--495121 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
495087 ATATAACTTT
495097 ACTTATATAA
1 ACTTATATAA
495107 ACTTATATAA
1 ACTTATATAA
495117 ACTTA
1 ACTTA
495122 AAGAAAAGTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.40
Consensus pattern (10 bp):
ACTTATATAA
Found at i:496573 original size:36 final size:36
Alignment explanation
Indices: 496526--496598 Score: 110
Period size: 36 Copynumber: 2.0 Consensus size: 36
496516 TTAAATCAAT
* *
496526 TTAAAATCAATTACAAAACTTATAAATGTATATTTG
1 TTAAAATCAATTACAAAACTTAGAAAGGTATATTTG
* *
496562 TTAAAATCAATTACGAAACTTAGAAAGGTATTTTTG
1 TTAAAATCAATTACAAAACTTAGAAAGGTATATTTG
496598 T
1 T
496599 ATTAGTACAA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
36 33 1.00
ACGTcount: A:0.44, C:0.08, G:0.10, T:0.38
Consensus pattern (36 bp):
TTAAAATCAATTACAAAACTTAGAAAGGTATATTTG
Found at i:501102 original size:28 final size:28
Alignment explanation
Indices: 501071--501144 Score: 82
Period size: 28 Copynumber: 2.6 Consensus size: 28
501061 ATGCTTTTAT
*
501071 TATTCATCCACTTTTGGTATGTTGA-AAG
1 TATTCATCCACTTTTGGTAGGTT-ACAAG
*
501099 TATTCATCTA-TTTGTGGTAGGTTACAAG
1 TATTCATCCACTTT-TGGTAGGTTACAAG
501127 TATAT-ATCCACTTTTGGT
1 TAT-TCATCCACTTTTGGT
501145 GGATGATCCA
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
27 4 0.10
28 31 0.79
29 4 0.10
ACGTcount: A:0.24, C:0.14, G:0.18, T:0.45
Consensus pattern (28 bp):
TATTCATCCACTTTTGGTAGGTTACAAG
Found at i:501187 original size:18 final size:18
Alignment explanation
Indices: 501131--501187 Score: 60
Period size: 18 Copynumber: 3.2 Consensus size: 18
501121 TACAAGTATA
501131 TATCCACTTTTGGTGGAT
1 TATCCACTTTTGGTGGAT
* * * * *
501149 GATCCACATATGATGGGT
1 TATCCACTTTTGGTGGAT
*
501167 TATCCATTTTTGGTGGAT
1 TATCCACTTTTGGTGGAT
501185 TAT
1 TAT
501188 TTATTTTTTT
Statistics
Matches: 28, Mismatches: 11, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.21, C:0.14, G:0.23, T:0.42
Consensus pattern (18 bp):
TATCCACTTTTGGTGGAT
Found at i:501460 original size:53 final size:56
Alignment explanation
Indices: 501352--501475 Score: 146
Period size: 59 Copynumber: 2.2 Consensus size: 56
501342 TATAGCCATC
* *
501352 ATAATTATTAAATAATATTACATTCACTTCAAAGAATGGTTAGATTCCTTATTATAA-TT
1 ATAATTATTAAATAATATCACATTCACTTCAAAGAATGGATAGA----TTATTATAAGTT
*
501411 ATAATTATTAAATAATATCACATTCACTTCAAAGAATTGATAGA-T-TTATAAGTT
1 ATAATTATTAAATAATATCACATTCACTTCAAAGAATGGATAGATTATTATAAGTT
* *
501465 TTTATTATTAA
1 ATAATTATTAA
501476 CTTGATTGTT
Statistics
Matches: 59, Mismatches: 5, Indels: 7
0.83 0.07 0.10
Matches are distributed among these distances:
53 6 0.10
54 12 0.20
59 41 0.69
ACGTcount: A:0.42, C:0.09, G:0.06, T:0.43
Consensus pattern (56 bp):
ATAATTATTAAATAATATCACATTCACTTCAAAGAATGGATAGATTATTATAAGTT
Found at i:502228 original size:23 final size:22
Alignment explanation
Indices: 502177--502228 Score: 59
Period size: 23 Copynumber: 2.3 Consensus size: 22
502167 TTAAAGTTTT
* * *
502177 TGAATTACCAAAAAATAACAAA
1 TGAAATACCAAAAAAAAAAAAA
502199 TGAAAATACCAACAAAAAAAAAAA
1 TG-AAATACCAA-AAAAAAAAAAA
502223 TGAAAT
1 TGAAAT
502229 CTTCTTTTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
22 2 0.08
23 12 0.48
24 11 0.44
ACGTcount: A:0.67, C:0.12, G:0.06, T:0.15
Consensus pattern (22 bp):
TGAAATACCAAAAAAAAAAAAA
Found at i:512842 original size:32 final size:32
Alignment explanation
Indices: 512801--512865 Score: 130
Period size: 32 Copynumber: 2.0 Consensus size: 32
512791 TACAATCCCT
512801 AAGTATCTCACATACTTCAACCTATAAGATCA
1 AAGTATCTCACATACTTCAACCTATAAGATCA
512833 AAGTATCTCACATACTTCAACCTATAAGATCA
1 AAGTATCTCACATACTTCAACCTATAAGATCA
512865 A
1 A
512866 TTACTTACTT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.42, C:0.25, G:0.06, T:0.28
Consensus pattern (32 bp):
AAGTATCTCACATACTTCAACCTATAAGATCA
Found at i:514266 original size:21 final size:20
Alignment explanation
Indices: 514241--514280 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
514231 AATCTCATCC
*
514241 ATTGTTTGAAGAAATAGAAAG
1 ATTGTTAGAAGAAAT-GAAAG
*
514262 ATTGTTAGGAGAAATGAAA
1 ATTGTTAGAAGAAATGAAA
514281 ATGACTCTTG
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.47, C:0.00, G:0.25, T:0.28
Consensus pattern (20 bp):
ATTGTTAGAAGAAATGAAAG
Found at i:522293 original size:20 final size:20
Alignment explanation
Indices: 522264--522318 Score: 74
Period size: 20 Copynumber: 2.8 Consensus size: 20
522254 TTTTCTGCAG
*
522264 TGAATCTATCGATACATTCT
1 TGAATCTATCGATACATTCA
* *
522284 TGAATGTATCGATACTTTCA
1 TGAATCTATCGATACATTCA
*
522304 AGAATCTATCGATAC
1 TGAATCTATCGATAC
522319 CTTAGTGAAA
Statistics
Matches: 30, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.33, C:0.18, G:0.13, T:0.36
Consensus pattern (20 bp):
TGAATCTATCGATACATTCA
Found at i:523026 original size:68 final size:68
Alignment explanation
Indices: 522831--523031 Score: 224
Period size: 68 Copynumber: 3.0 Consensus size: 68
522821 AAGTCCATTA
* * * * *
522831 CATATATGCTTACTCATCTCATAAGGTATATGGAATATACACCATATACATAATCTCATGGCATT
1 CATATATACTTAATCATCTCATAAGGTATATGGAATTTACATCATATACATAATCTTATGGCATT
522896 CAT
66 CAT
** * * * ** * *
522899 CATGCATACTTAATCACCTCATAAGGTATTTGGAATTTAAATTGTATACACAATCTTATGGTATT
1 CATATATACTTAATCATCTCATAAGGTATATGGAATTTACATCATATACATAATCTTATGGCATT
522964 CAT
66 CAT
* * * *
522967 CATATATACTTAATCATCTTATATGATATATGAAATTTACATCATATACATAAGT-TTATGGCAT
1 CATATATACTTAATCATCTCATAAGGTATATGGAATTTACATCATATACATAA-TCTTATGGCAT
523031 T
65 T
523032 TATTATACAA
Statistics
Matches: 105, Mismatches: 27, Indels: 2
0.78 0.20 0.01
Matches are distributed among these distances:
68 104 0.99
69 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (68 bp):
CATATATACTTAATCATCTCATAAGGTATATGGAATTTACATCATATACATAATCTTATGGCATT
CAT
Found at i:523982 original size:23 final size:23
Alignment explanation
Indices: 523952--524017 Score: 87
Period size: 23 Copynumber: 2.9 Consensus size: 23
523942 GAGAACAACA
* *
523952 AAATGTATTGATACATTTGGGCC
1 AAATGTATCGATACATTTGGACC
* *
523975 AAATGTATCAATAGATTTGGACC
1 AAATGTATCGATACATTTGGACC
*
523998 ATATGTATCGATACATTTGG
1 AAATGTATCGATACATTTGG
524018 TTTTAGAAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 36 1.00
ACGTcount: A:0.33, C:0.12, G:0.20, T:0.35
Consensus pattern (23 bp):
AAATGTATCGATACATTTGGACC
Found at i:524056 original size:21 final size:21
Alignment explanation
Indices: 524030--524089 Score: 68
Period size: 21 Copynumber: 2.9 Consensus size: 21
524020 TTAGAAAAAT
*
524030 TGTATCGATACATTATGAATA
1 TGTATCGATACATTATGAACA
* * *
524051 TGTATCGATATATCATAAACA
1 TGTATCGATACATTATGAACA
*
524072 TGTATTGATACATT-TGAA
1 TGTATCGATACATTATGAA
524090 ACAGAATGTA
Statistics
Matches: 31, Mismatches: 8, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
20 3 0.10
21 28 0.90
ACGTcount: A:0.38, C:0.10, G:0.13, T:0.38
Consensus pattern (21 bp):
TGTATCGATACATTATGAACA
Found at i:532744 original size:21 final size:21
Alignment explanation
Indices: 532706--532746 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
532696 AAGTGAGTTA
*
532706 TTTTAATTTTATATTTATTTC
1 TTTTAATTTGATATTTATTTC
532727 TTTTAATTTGAT-TATTATTT
1 TTTTAATTTGATAT-TTATTT
532747 ATTAATTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 1 0.06
21 17 0.94
ACGTcount: A:0.24, C:0.02, G:0.02, T:0.71
Consensus pattern (21 bp):
TTTTAATTTGATATTTATTTC
Found at i:541055 original size:21 final size:21
Alignment explanation
Indices: 541029--541072 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
541019 CTTCTTTCTC
*
541029 CTTTCTTCCTTTCTCTCCTTT
1 CTTTCTTCCTTCCTCTCCTTT
541050 CTTTCTTCCTTCCTCTCCTTT
1 CTTTCTTCCTTCCTCTCCTTT
541071 CT
1 CT
541073 CTTTCTCTCT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.00, C:0.41, G:0.00, T:0.59
Consensus pattern (21 bp):
CTTTCTTCCTTCCTCTCCTTT
Found at i:541082 original size:17 final size:18
Alignment explanation
Indices: 541020--541082 Score: 58
Period size: 17 Copynumber: 3.4 Consensus size: 18
541010 TTTTTTGTTC
* *
541020 TTCTTTCTCCTTTCTTCC
1 TTCTCTCTCCTTTCTTCT
541038 TT-TCTCTCCTTTCTTTCT
1 TTCTCTCTCCTTTC-TTCT
*
541056 TCCTTCCTCTCCTTTC-TCT
1 TTC-T-CTCTCCTTTCTTCT
541075 TTCTCTCT
1 TTCTCTCT
541083 TGGTAGTGGA
Statistics
Matches: 37, Mismatches: 4, Indels: 9
0.74 0.08 0.18
Matches are distributed among these distances:
17 14 0.38
18 7 0.19
19 5 0.14
20 1 0.03
21 10 0.27
ACGTcount: A:0.00, C:0.40, G:0.00, T:0.60
Consensus pattern (18 bp):
TTCTCTCTCCTTTCTTCT
Found at i:561315 original size:21 final size:21
Alignment explanation
Indices: 561291--561349 Score: 91
Period size: 21 Copynumber: 2.8 Consensus size: 21
561281 ATTCTGTTTG
* *
561291 AAATGAATCGATACATTACCC
1 AAATGTATCCATACATTACCC
*
561312 AAATGTATCCATACATTACCT
1 AAATGTATCCATACATTACCC
561333 AAATGTATCCATACATT
1 AAATGTATCCATACATT
561350 CATTCAAAAT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
21 35 1.00
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.31
Consensus pattern (21 bp):
AAATGTATCCATACATTACCC
Found at i:565722 original size:16 final size:16
Alignment explanation
Indices: 565701--565735 Score: 70
Period size: 16 Copynumber: 2.2 Consensus size: 16
565691 TAAGTACCTG
565701 AAATTATTGAAAATGA
1 AAATTATTGAAAATGA
565717 AAATTATTGAAAATGA
1 AAATTATTGAAAATGA
565733 AAA
1 AAA
565736 GATCTTAATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.60, C:0.00, G:0.11, T:0.29
Consensus pattern (16 bp):
AAATTATTGAAAATGA
Found at i:566233 original size:2 final size:2
Alignment explanation
Indices: 566226--566251 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
566216 CTTGATATCC
566226 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
566252 GAAAATTCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:568074 original size:21 final size:21
Alignment explanation
Indices: 568050--568089 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
568040 TCAATAAACT
568050 CGAAAAATCTATCGATAGACC
1 CGAAAAATCTATCGATAGACC
568071 CGAAAAATCTATCGATAGA
1 CGAAAAATCTATCGATAGA
568090 TGGAGGGTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.45, C:0.20, G:0.15, T:0.20
Consensus pattern (21 bp):
CGAAAAATCTATCGATAGACC
Found at i:568981 original size:20 final size:20
Alignment explanation
Indices: 568956--568998 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 20
568946 GGAAGGGAAG
568956 ATTAAAAGAA-AAAAAGATCA
1 ATTAAAA-AAGAAAAAGATCA
568976 ATTAAAAAAGGAAAAAGATCA
1 ATTAAAAAA-GAAAAAGATCA
568997 AT
1 AT
568999 GGAATCCCTA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
19 2 0.10
20 7 0.33
21 12 0.57
ACGTcount: A:0.67, C:0.05, G:0.12, T:0.16
Consensus pattern (20 bp):
ATTAAAAAAGAAAAAGATCA
Found at i:575566 original size:35 final size:34
Alignment explanation
Indices: 575526--575599 Score: 96
Period size: 35 Copynumber: 2.1 Consensus size: 34
575516 ATATGTAAAT
* *
575526 TTAAATAA-TCAAAAACAAATATCTCAAATATCAAC
1 TTAAATAACT-AAAAACAAATAT-TCAAACAACAAC
*
575561 TTAAATAACTAAAAACAAATATTCGAACAACAAC
1 TTAAATAACTAAAAACAAATATTCAAACAACAAC
575595 TTAAA
1 TTAAA
575600 CATTATAAGT
Statistics
Matches: 35, Mismatches: 3, Indels: 3
0.85 0.07 0.07
Matches are distributed among these distances:
34 14 0.40
35 20 0.57
36 1 0.03
ACGTcount: A:0.58, C:0.16, G:0.01, T:0.24
Consensus pattern (34 bp):
TTAAATAACTAAAAACAAATATTCAAACAACAAC
Found at i:576843 original size:59 final size:59
Alignment explanation
Indices: 576750--576864 Score: 167
Period size: 59 Copynumber: 1.9 Consensus size: 59
576740 GGATTTTGGA
* *
576750 TAATATCTTTTTATCCAAATCCATTTTATCCCAATTGGACGTTGAATAATTTTTCAGGC
1 TAATATCTTTTTATCCAAATCCATTTTATCCCAATTGGACATTAAATAATTTTTCAGGC
* * * **
576809 TAATATCTTTTTGTCTAAATCCATTTTATTCCAATTTTACATTAAATAATTTTTCA
1 TAATATCTTTTTATCCAAATCCATTTTATCCCAATTGGACATTAAATAATTTTTCA
576865 ATGCATCTTA
Statistics
Matches: 49, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
59 49 1.00
ACGTcount: A:0.30, C:0.17, G:0.06, T:0.47
Consensus pattern (59 bp):
TAATATCTTTTTATCCAAATCCATTTTATCCCAATTGGACATTAAATAATTTTTCAGGC
Found at i:577233 original size:34 final size:34
Alignment explanation
Indices: 577190--577268 Score: 95
Period size: 34 Copynumber: 2.3 Consensus size: 34
577180 TGTTACACAC
* ** *
577190 CAAAACTTCAACAGTAAATGTTACATGCTAAGGT
1 CAAAGCTTCAACACCAAATGTTACATGCTAAAGT
** *
577224 CAAAGCTTCAGTACCAAATGTTACATGTTAAAGT
1 CAAAGCTTCAACACCAAATGTTACATGCTAAAGT
577258 CAAAGCTTCAA
1 CAAAGCTTCAA
577269 TACTAGACAT
Statistics
Matches: 37, Mismatches: 8, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.27
Consensus pattern (34 bp):
CAAAGCTTCAACACCAAATGTTACATGCTAAAGT
Found at i:578076 original size:16 final size:16
Alignment explanation
Indices: 578057--578113 Score: 53
Period size: 16 Copynumber: 3.5 Consensus size: 16
578047 ATAACCATAT
578057 TTGATAATAGTTTTAC
1 TTGATAATAGTTTTAC
****
578073 TTGATAATTA-ACCGAC
1 TTGATAA-TAGTTTTAC
578089 ATTGATAATAGTTTTAC
1 -TTGATAATAGTTTTAC
578106 TTGATAAT
1 TTGATAAT
578114 TAATCGACAT
Statistics
Matches: 30, Mismatches: 8, Indels: 6
0.68 0.18 0.14
Matches are distributed among these distances:
16 19 0.63
17 11 0.37
ACGTcount: A:0.35, C:0.09, G:0.12, T:0.44
Consensus pattern (16 bp):
TTGATAATAGTTTTAC
Found at i:578094 original size:33 final size:33
Alignment explanation
Indices: 578057--578126 Score: 131
Period size: 33 Copynumber: 2.1 Consensus size: 33
578047 ATAACCATAT
578057 TTGATAATAGTTTTACTTGATAATTAACCGACA
1 TTGATAATAGTTTTACTTGATAATTAACCGACA
*
578090 TTGATAATAGTTTTACTTGATAATTAATCGACA
1 TTGATAATAGTTTTACTTGATAATTAACCGACA
578123 TTGA
1 TTGA
578127 AGTGAAGAGA
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
33 36 1.00
ACGTcount: A:0.36, C:0.10, G:0.13, T:0.41
Consensus pattern (33 bp):
TTGATAATAGTTTTACTTGATAATTAACCGACA
Found at i:581324 original size:30 final size:30
Alignment explanation
Indices: 581285--581341 Score: 78
Period size: 30 Copynumber: 1.9 Consensus size: 30
581275 TCTAAAGGCT
* * *
581285 GAGAAAGAAGAGAAGGGAAAGGAACAAGCA
1 GAGAAAGAAGAAAAAGAAAAGGAACAAGCA
*
581315 GAGACAGAAGAAAAAGAAAAGGAACAA
1 GAGAAAGAAGAAAAAGAAAAGGAACAA
581342 TCTGTTAGGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.61, C:0.07, G:0.32, T:0.00
Consensus pattern (30 bp):
GAGAAAGAAGAAAAAGAAAAGGAACAAGCA
Found at i:586508 original size:36 final size:37
Alignment explanation
Indices: 586457--586541 Score: 111
Period size: 36 Copynumber: 2.3 Consensus size: 37
586447 AACAAACGAT
* * *
586457 AATTTACAAACAACAATTCACAACTGATTAATCCAA-
1 AATTCACAAATAACAATTCACAACTAATTAATCCAAG
*
586493 AATTTCA-AAATAACAATTCACAACTAATTGATCCAAG
1 AA-TTCACAAATAACAATTCACAACTAATTAATCCAAG
586530 AATTCACAAATA
1 AATTCACAAATA
586542 TATTTACACA
Statistics
Matches: 42, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
36 32 0.76
37 10 0.24
ACGTcount: A:0.51, C:0.20, G:0.04, T:0.26
Consensus pattern (37 bp):
AATTCACAAATAACAATTCACAACTAATTAATCCAAG
Found at i:586586 original size:16 final size:16
Alignment explanation
Indices: 586565--586602 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
586555 TGAAACAAAG
*
586565 ATAAAATAATA-ATAAA
1 ATAAAACAATAGAT-AA
586581 ATAAAACAATAGATAA
1 ATAAAACAATAGATAA
586597 ATAAAA
1 ATAAAA
586603 GGAAATAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
16 18 0.90
17 2 0.10
ACGTcount: A:0.74, C:0.03, G:0.03, T:0.21
Consensus pattern (16 bp):
ATAAAACAATAGATAA
Found at i:592000 original size:76 final size:77
Alignment explanation
Indices: 591909--592071 Score: 274
Period size: 76 Copynumber: 2.1 Consensus size: 77
591899 AATGCCATCT
* *
591909 ATTTTAATTTTGGGTGATTCATAAAAAATAGGAAATTGTTTCCTAC-TTAAAAGTAATTTCCAAA
1 ATTTTAATTTTGGGTGATTCATAAAAAATAGAAAATTGTTTCCTACTTTAAAAGAAATTTCCAAA
591973 ATTAAGGATAGA
66 ATTAAGGATAGA
* *
591985 ATTTTAATTTTGGGTGATTCATAAAGAATAGAAAATTGTTTCCTACTTTAAAAGAAATTTCTAAA
1 ATTTTAATTTTGGGTGATTCATAAAAAATAGAAAATTGTTTCCTACTTTAAAAGAAATTTCCAAA
*
592050 ATTAAGGATAGC
66 ATTAAGGATAGA
592062 ATTTTAATTT
1 ATTTTAATTT
592072 GAAAAATTCA
Statistics
Matches: 81, Mismatches: 5, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
76 44 0.54
77 37 0.46
ACGTcount: A:0.40, C:0.07, G:0.13, T:0.39
Consensus pattern (77 bp):
ATTTTAATTTTGGGTGATTCATAAAAAATAGAAAATTGTTTCCTACTTTAAAAGAAATTTCCAAA
ATTAAGGATAGA
Found at i:617908 original size:41 final size:43
Alignment explanation
Indices: 617843--617957 Score: 137
Period size: 41 Copynumber: 2.7 Consensus size: 43
617833 ACAAAAAAGC
* *
617843 CATGGGAAGTGGAGACTTACTCAATCCACATT-ATCAT-AAAT
1 CATGGGAAGTGGAGACTTAGTCAATCCACATTGATAATAAAAT
*
617884 CATGGGAAGTGGAGACATAGTCAATCCAC-TTGATAATAAAAT
1 CATGGGAAGTGGAGACTTAGTCAATCCACATTGATAATAAAAT
** * *
617926 CAAAGGAATGTGGAGACTTTGTTAATCCACAT
1 CATGGGAA-GTGGAGACTTAGTCAATCCACAT
617958 CACAACACCC
Statistics
Matches: 62, Mismatches: 8, Indels: 5
0.83 0.11 0.07
Matches are distributed among these distances:
40 2 0.03
41 31 0.50
42 10 0.16
43 18 0.29
44 1 0.02
ACGTcount: A:0.37, C:0.17, G:0.20, T:0.26
Consensus pattern (43 bp):
CATGGGAAGTGGAGACTTAGTCAATCCACATTGATAATAAAAT
Found at i:619204 original size:16 final size:15
Alignment explanation
Indices: 619178--619207 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
619168 TAAAAATATC
619178 CAAAAAATCAAAATT
1 CAAAAAATCAAAATT
619193 CAAAACAATCAAAAT
1 CAAAA-AATCAAAAT
619208 CTAAATTTTG
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 5 0.36
16 9 0.64
ACGTcount: A:0.67, C:0.17, G:0.00, T:0.17
Consensus pattern (15 bp):
CAAAAAATCAAAATT
Found at i:636514 original size:118 final size:119
Alignment explanation
Indices: 636281--636518 Score: 379
Period size: 118 Copynumber: 2.0 Consensus size: 119
636271 ATTGAGTGTA
*
636281 TAGGTTCTAACTCAGCTTAGAAAAGTTAATTTTTAGGTTTTCGTTGATCCCAGAAAAAACCATTG
1 TAGGTTCTAACTCAGCCTAGAAAAGTTAATTTTTAGGTTTTCGTTGATCCCAGAAAAAACCATTG
* *
636346 TTGAAAGTTGTGGCTGAACCTGTGAAAAGCCATTGTAAAAGCTTGATGAAAGCT
66 TTGAAAGTTGTGGCTGAACCTATGAAAAGCCATTGTAAAAGCTAGATGAAAGCT
* * * *
636400 TAGGTTCTAACTCAGCCTAGAAAAGTTAGTTTTTGGGTTTTGGTTGATCCC-GAAAAAATCATTG
1 TAGGTTCTAACTCAGCCTAGAAAAGTTAATTTTTAGGTTTTCGTTGATCCCAGAAAAAACCATTG
* * *
636464 TTGAAGGTTGTGGCTGAGCCTATGAAAAGCCATTGTAAAAGCTAGGTGAAAGCT
66 TTGAAAGTTGTGGCTGAACCTATGAAAAGCCATTGTAAAAGCTAGATGAAAGCT
636518 T
1 T
636519 CGAAATTTTA
Statistics
Matches: 109, Mismatches: 10, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
118 62 0.57
119 47 0.43
ACGTcount: A:0.31, C:0.14, G:0.23, T:0.32
Consensus pattern (119 bp):
TAGGTTCTAACTCAGCCTAGAAAAGTTAATTTTTAGGTTTTCGTTGATCCCAGAAAAAACCATTG
TTGAAAGTTGTGGCTGAACCTATGAAAAGCCATTGTAAAAGCTAGATGAAAGCT
Found at i:639260 original size:22 final size:23
Alignment explanation
Indices: 639205--639260 Score: 60
Period size: 22 Copynumber: 2.5 Consensus size: 23
639195 AACAATGCAT
*
639205 ACATGACTTTATCTTTTATTTTG
1 ACATAACTTTATCTTTTATTTTG
* * *
639228 CCATCACTTTAT-TTTTTTTTTG
1 ACATAACTTTATCTTTTATTTTG
*
639250 ACATAATTTTA
1 ACATAACTTTA
639261 CACCTTTAAA
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
22 17 0.63
23 10 0.37
ACGTcount: A:0.23, C:0.14, G:0.05, T:0.57
Consensus pattern (23 bp):
ACATAACTTTATCTTTTATTTTG
Found at i:639974 original size:22 final size:22
Alignment explanation
Indices: 639913--639981 Score: 61
Period size: 22 Copynumber: 3.0 Consensus size: 22
639903 AAATCCAAAT
639913 AAATAAATAAACTTAAAGA-A-A
1 AAATAAATAAACTTAAA-ACATA
* *
639934 AGCAACTAAATGAACTTAAAATATA
1 A--AA-TAAATAAACTTAAAACATA
*
639959 AAATAAATAAATTTAAAACATA
1 AAATAAATAAACTTAAAACATA
639981 A
1 A
639982 CTAAAAAGGT
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
21 1 0.03
22 17 0.44
23 5 0.13
24 14 0.36
25 2 0.05
ACGTcount: A:0.65, C:0.07, G:0.04, T:0.23
Consensus pattern (22 bp):
AAATAAATAAACTTAAAACATA
Found at i:641037 original size:12 final size:12
Alignment explanation
Indices: 641016--641060 Score: 63
Period size: 12 Copynumber: 3.8 Consensus size: 12
641006 GATAAATAAC
*
641016 ACATACATACAT
1 ACATATATACAT
641028 ACATATATACAT
1 ACATATATACAT
*
641040 ACATATGTACAT
1 ACATATATACAT
*
641052 ATATATATA
1 ACATATATA
641061 TATATATAGC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
12 29 1.00
ACGTcount: A:0.49, C:0.16, G:0.02, T:0.33
Consensus pattern (12 bp):
ACATATATACAT
Found at i:644953 original size:10 final size:10
Alignment explanation
Indices: 644935--644986 Score: 52
Period size: 10 Copynumber: 5.1 Consensus size: 10
644925 ATGTTGAGTG
*
644935 GTTAATTTAA
1 GTTATTTTAA
644945 GTTATTTT-A
1 GTTATTTTAA
*
644954 GTTAAATTTTAT
1 GTT--ATTTTAA
644966 GTTATTTTAA
1 GTTATTTTAA
*
644976 ATTATTTTAA
1 GTTATTTTAA
644986 G
1 G
644987 AGCTGTATTG
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
9 4 0.12
10 22 0.65
11 5 0.15
12 3 0.09
ACGTcount: A:0.33, C:0.00, G:0.10, T:0.58
Consensus pattern (10 bp):
GTTATTTTAA
Found at i:649009 original size:334 final size:334
Alignment explanation
Indices: 648400--649057 Score: 896
Period size: 334 Copynumber: 2.0 Consensus size: 334
648390 TGGCCCTCTC
* *
648400 AAACTCAAAGGAACTTTTCTATCTTTTGTTTTTAACCATTGGAAGGGTTTTTTGCACTTGGAAGA
1 AAACTCAAAGGAACTTTTCTATCTTTTGTTTTTAAACATTGGAAGGGCTTTTTGCACTTGGAAGA
* * * * * *
648465 TCACATTTAGTTGTTGGAGACAAATTCTACCTGTTGGAAATAATTTTGGCCTAGTTTTAGTCATT
66 TCACATTTAGTCGTTAGAGACAAATTCTACCAGTTGGAAACAATTTTAGCCCAGTTTTAGTCATT
* * * * *
648530 ATTTGTCTTTTTACGCTTAAATTCTAATGTGCACACAATGTTTCAATATTCAATTAAAGGCAAGC
131 ATTTATCCTTTTACGCTTAAATTCAAATGTGCACACAATGGTTCAATAATCAATTAAAGGCAAGC
* * *
648595 TTTAACTGATTAAGCCTTCCTTAACTTACAATGCCTATCAATTCTCTTCACAGTGTTAATTGGTT
196 TTTAACTGATGAAGCCTTCCTTAACTTACAATACCTATCAATTCTCTTCACAGTGTTAACTGGTT
* *
648660 AAAGAAAACTTTAACTAATTAAGAGTTTTCTATTTGAAACACTTTCAAGCACTGTTTTTGGCCAA
261 AAAGAAAACTTTAACTAATTAAGAGCTTTCCATTTGAAACACTTTCAAGCACTGTTTTTGGCCAA
648725 CCTTCTTTA
326 CCTTCTTTA
* * * *
648734 AAACTCAATGGAACTTCTT-TATAC-TTT-TTTTTAAACGTTGGAGGGGCTTTTTGTACTTGGAA
1 AAACTCAAAGGAACTT-TTCTAT-CTTTTGTTTTTAAACATTGGAAGGGCTTTTTGCACTTGGAA
648796 GATCACATTTAGTCGTTAGAGACAAATTCTACCAGTTGGAAACAATTTTAGCCCAGTTTTAGTCA
64 GATCACATTTAGTCGTTAGAGACAAATTCTACCAGTTGGAAACAATTTTAGCCCAGTTTTAGTCA
* * * * * **
648861 TTATTTTATCCTTTTATGCTTCAATTCAAATGTGCAGATAGTGGTTCAATAATCGGTTAAAGGCA
129 TTA-TTTATCCTTTTACGCTTAAATTCAAATGTGCACACAATGGTTCAATAATCAATTAAAGGCA
* *
648926 AGCTTTAACAT-ATGAAGCCTTTCC-TAACTTACAATACC-AGTCAATTCTTTTCACTGTGTTAA
193 AGCTTTAAC-TGATGAAGCC-TTCCTTAACTTACAATACCTA-TCAATTCTCTTCACAGTGTTAA
* * * * *
648988 CTGGTTAAAGGAAACTTTAACTGATTAAGAGCTTTCCATTTGGAGCACTTTCAGGCACTGTTTTT
255 CTGGTTAAAGAAAACTTTAACTAATTAAGAGCTTTCCATTTGAAACACTTTCAAGCACTGTTTTT
649053 GGCCA
320 GGCCA
649058 GCCTATTTTC
Statistics
Matches: 282, Mismatches: 36, Indels: 12
0.85 0.11 0.04
Matches are distributed among these distances:
333 93 0.33
334 181 0.64
335 8 0.03
ACGTcount: A:0.29, C:0.17, G:0.16, T:0.38
Consensus pattern (334 bp):
AAACTCAAAGGAACTTTTCTATCTTTTGTTTTTAAACATTGGAAGGGCTTTTTGCACTTGGAAGA
TCACATTTAGTCGTTAGAGACAAATTCTACCAGTTGGAAACAATTTTAGCCCAGTTTTAGTCATT
ATTTATCCTTTTACGCTTAAATTCAAATGTGCACACAATGGTTCAATAATCAATTAAAGGCAAGC
TTTAACTGATGAAGCCTTCCTTAACTTACAATACCTATCAATTCTCTTCACAGTGTTAACTGGTT
AAAGAAAACTTTAACTAATTAAGAGCTTTCCATTTGAAACACTTTCAAGCACTGTTTTTGGCCAA
CCTTCTTTA
Found at i:649293 original size:21 final size:21
Alignment explanation
Indices: 649267--649306 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
649257 TAACCAAAGT
*
649267 TTAACTAATTAACCCCTTTGG
1 TTAACTAATTAACACCTTTGG
*
649288 TTAACTGATTAACACCTTT
1 TTAACTAATTAACACCTTT
649307 CTATTTTGCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.30, C:0.23, G:0.07, T:0.40
Consensus pattern (21 bp):
TTAACTAATTAACACCTTTGG
Found at i:660545 original size:20 final size:20
Alignment explanation
Indices: 660520--660571 Score: 68
Period size: 20 Copynumber: 2.6 Consensus size: 20
660510 GTTTTTATAA
*
660520 TTATTTTATTTTTAAGTGAT
1 TTATTTTAATTTTAAGTGAT
* *
660540 TTATTTTAATTTTATGTTAT
1 TTATTTTAATTTTAAGTGAT
*
660560 TTCTTTTAATTT
1 TTATTTTAATTT
660572 GATTAATCTT
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.23, C:0.02, G:0.06, T:0.69
Consensus pattern (20 bp):
TTATTTTAATTTTAAGTGAT
Found at i:665692 original size:20 final size:20
Alignment explanation
Indices: 665667--665707 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
665657 TATTTTAAGC
*
665667 TATGTTTTGCATGTTTTATT
1 TATGTTTTACATGTTTTATT
665687 TATGTTTTACATGTTTTATT
1 TATGTTTTACATGTTTTATT
665707 T
1 T
665708 GTGGTCAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.17, C:0.05, G:0.12, T:0.66
Consensus pattern (20 bp):
TATGTTTTACATGTTTTATT
Found at i:668155 original size:22 final size:20
Alignment explanation
Indices: 668123--668163 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 20
668113 AGTTATTATT
668123 ATTTTGATTTTTCTTAGTTTAA
1 ATTTTGA-TTTTCTTA-TTTAA
*
668145 ATTTTGGTTTTCTTATTTA
1 ATTTTGATTTTCTTATTTA
668164 GTTCATTTAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 4 0.22
21 8 0.44
22 6 0.33
ACGTcount: A:0.20, C:0.05, G:0.10, T:0.66
Consensus pattern (20 bp):
ATTTTGATTTTCTTATTTAA
Found at i:669863 original size:24 final size:23
Alignment explanation
Indices: 669830--669877 Score: 60
Period size: 24 Copynumber: 2.0 Consensus size: 23
669820 AGGTGTTTTT
**
669830 ATTTATTTTATTTGTTTAGTTTA
1 ATTTATTTTAAATGTTTAGTTTA
*
669853 ATTTATGTTTAAATGTTTATTTTA
1 ATTTAT-TTTAAATGTTTAGTTTA
669877 A
1 A
669878 GTTAATAATG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
23 6 0.29
24 15 0.71
ACGTcount: A:0.27, C:0.00, G:0.08, T:0.65
Consensus pattern (23 bp):
ATTTATTTTAAATGTTTAGTTTA
Found at i:669915 original size:20 final size:20
Alignment explanation
Indices: 669829--669921 Score: 54
Period size: 19 Copynumber: 4.8 Consensus size: 20
669819 AAGGTGTTTT
*
669829 TATTTATTTTAT-TTGT-T-
1 TATTTATTTTATGTTATATA
* *
669846 TAGTTTAATTTATGTT-TAAA
1 TA-TTTATTTTATGTTATATA
* *
669866 TGTTTATTTTAAGTTA-ATA
1 TATTTATTTTATGTTATATA
*
669885 -ATGTTAGTTTTATGTTATTTA
1 TAT-TTA-TTTTATGTTATATA
669906 TATTTATTTTTATGTT
1 TATTTA-TTTTATGTT
669922 TTTGTAGGAG
Statistics
Matches: 57, Mismatches: 10, Indels: 14
0.70 0.12 0.17
Matches are distributed among these distances:
17 2 0.04
18 11 0.19
19 18 0.32
20 10 0.18
21 14 0.25
22 2 0.04
ACGTcount: A:0.26, C:0.00, G:0.10, T:0.65
Consensus pattern (20 bp):
TATTTATTTTATGTTATATA
Found at i:680498 original size:18 final size:17
Alignment explanation
Indices: 680477--680510 Score: 50
Period size: 18 Copynumber: 1.9 Consensus size: 17
680467 AAGATTTTTT
680477 TTTTATTATTATTTTTAA
1 TTTTATTATT-TTTTTAA
*
680495 TTTTTTTATTTTTTTA
1 TTTTATTATTTTTTTA
680511 TAATTGAGGG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (17 bp):
TTTTATTATTTTTTTAA
Found at i:681064 original size:16 final size:16
Alignment explanation
Indices: 681040--681070 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
681030 TAAAAATATA
681040 AAAACAATCAAAATCC
1 AAAACAATCAAAATCC
*
681056 AAAAGAATCAAAATC
1 AAAACAATCAAAATC
681071 TAAATTTTGG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.65, C:0.19, G:0.03, T:0.13
Consensus pattern (16 bp):
AAAACAATCAAAATCC
Found at i:685574 original size:12 final size:12
Alignment explanation
Indices: 685557--685581 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
685547 CACCCATAAA
685557 AGAAAAGAAAAG
1 AGAAAAGAAAAG
685569 AGAAAAGAAAAG
1 AGAAAAGAAAAG
685581 A
1 A
685582 AAATAATGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (12 bp):
AGAAAAGAAAAG
Found at i:685731 original size:13 final size:13
Alignment explanation
Indices: 685715--685756 Score: 50
Period size: 13 Copynumber: 3.3 Consensus size: 13
685705 GGGAGAGAGA
*
685715 AAAGAGAGGAAAG
1 AAAGAAAGGAAAG
*
685728 AAAGAAAGAAAAG
1 AAAGAAAGGAAAG
*
685741 AGAGAAAGGAAA-
1 AAAGAAAGGAAAG
685753 AAAG
1 AAAG
685757 GTTCTACTTG
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
12 3 0.12
13 21 0.88
ACGTcount: A:0.69, C:0.00, G:0.31, T:0.00
Consensus pattern (13 bp):
AAAGAAAGGAAAG
Found at i:685737 original size:22 final size:21
Alignment explanation
Indices: 685698--685756 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 21
685688 CAAAGTGAAA
* * *
685698 AGAGAAAGGGAGAGAGAAAAG
1 AGAGAAAGGAAAAAAGAAAAG
685719 AGAGGAAA-GAAAGAAAGAAAAG
1 AGA-GAAAGGAAA-AAAGAAAAG
685741 AGAGAAAGGAAAAAAG
1 AGAGAAAGGAAAAAAG
685757 GTTCTACTTG
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
21 13 0.41
22 19 0.59
ACGTcount: A:0.64, C:0.00, G:0.36, T:0.00
Consensus pattern (21 bp):
AGAGAAAGGAAAAAAGAAAAG
Found at i:690749 original size:8 final size:8
Alignment explanation
Indices: 690736--690775 Score: 53
Period size: 8 Copynumber: 5.0 Consensus size: 8
690726 TTCTTCTTCC
690736 TCCTTTCT
1 TCCTTTCT
690744 TCCTTTCT
1 TCCTTTCT
*
690752 TCTTTTCT
1 TCCTTTCT
*
690760 TTCTTTCT
1 TCCTTTCT
*
690768 CCCTTTCT
1 TCCTTTCT
690776 AAGTTATCAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
8 27 1.00
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (8 bp):
TCCTTTCT
Found at i:690749 original size:24 final size:24
Alignment explanation
Indices: 690719--690775 Score: 71
Period size: 24 Copynumber: 2.4 Consensus size: 24
690709 GAACATTCCT
690719 TTCCTTT-TTCTTCTTCCTCCTTTC
1 TTCCTTTCTTCTT-TTCCTCCTTTC
* *
690743 TTCCTTTCTTCTTTTCTTTCTTTC
1 TTCCTTTCTTCTTTTCCTCCTTTC
*
690767 TCCCTTTCT
1 TTCCTTTCT
690776 AAGTTATCAT
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 24 0.83
25 5 0.17
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (24 bp):
TTCCTTTCTTCTTTTCCTCCTTTC
Found at i:690758 original size:16 final size:16
Alignment explanation
Indices: 690714--690766 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 16
690704 AGGCTGAACA
690714 TTCCTTTCCT-TTTTC
1 TTCCTTTCCTCTTTTC
*
690729 TT-C-TTCCTCCTTTC
1 TTCCTTTCCTCTTTTC
*
690743 TTCCTTTCTTCTTTTC
1 TTCCTTTCCTCTTTTC
*
690759 TTTCTTTC
1 TTCCTTTC
690767 TCCCTTTCTA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
13 5 0.16
14 7 0.23
15 3 0.10
16 16 0.52
ACGTcount: A:0.00, C:0.34, G:0.00, T:0.66
Consensus pattern (16 bp):
TTCCTTTCCTCTTTTC
Found at i:690774 original size:16 final size:15
Alignment explanation
Indices: 690725--690775 Score: 50
Period size: 16 Copynumber: 3.3 Consensus size: 15
690715 TCCTTTCCTT
*
690725 TTTC-TTCTTCCTCC
1 TTTCTTTCTTTCTCC
* *
690739 TTTCTTCCTTTCTTCT
1 TTTCTTTCTTTC-TCC
690755 TTTCTTTCTTTCTCCC
1 TTTCTTTCTTTCT-CC
690771 TTTCT
1 TTTCT
690776 AAGTTATCAT
Statistics
Matches: 29, Mismatches: 5, Indels: 4
0.76 0.13 0.11
Matches are distributed among these distances:
14 4 0.14
15 6 0.21
16 19 0.66
ACGTcount: A:0.00, C:0.35, G:0.00, T:0.65
Consensus pattern (15 bp):
TTTCTTTCTTTCTCC
Found at i:692187 original size:16 final size:16
Alignment explanation
Indices: 692166--692226 Score: 72
Period size: 16 Copynumber: 3.8 Consensus size: 16
692156 AACCTTTCTT
* *
692166 TCCTTTTTCTTCTTCC
1 TCCTTTCTCTTCTTTC
692182 TCCTTTCT-TTCTTTC
1 TCCTTTCTCTTCTTTC
692197 TCCCTTTCT-TTCTTTC
1 T-CCTTTCTCTTCTTTC
692213 TCCCTTTCTCTTCT
1 T-CCTTTCTCTTCT
692227 CACTTGTTAT
Statistics
Matches: 41, Mismatches: 2, Indels: 3
0.89 0.04 0.07
Matches are distributed among these distances:
15 7 0.17
16 30 0.73
17 4 0.10
ACGTcount: A:0.00, C:0.38, G:0.00, T:0.62
Consensus pattern (16 bp):
TCCTTTCTCTTCTTTC
Found at i:699924 original size:13 final size:13
Alignment explanation
Indices: 699906--699930 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
699896 AAAGGAGAGG
699906 AAAGAAAGAAAGA
1 AAAGAAAGAAAGA
699919 AAAGAAAGAAAG
1 AAAGAAAGAAAG
699931 GAAGGAAGGT
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:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (13 bp):
AAAGAAAGAAAGA
Found at i:718260 original size:34 final size:35
Alignment explanation
Indices: 718208--718283 Score: 93
Period size: 34 Copynumber: 2.2 Consensus size: 35
718198 ACAATAAAAT
* *
718208 AAATCAACAATAACTAAACTTAAA-TAATTTAAAGTA
1 AAAT-AACAATAACTAAAC-TAAAGTAACTTAAACTA
*
718244 AAATAACAA-AATTAAACTAAAGTAACTTAAACTA
1 AAATAACAATAACTAAACTAAAGTAACTTAAACTA
718278 AAATAA
1 AAATAA
718284 TCAACATATA
Statistics
Matches: 36, Mismatches: 3, Indels: 4
0.84 0.07 0.09
Matches are distributed among these distances:
33 4 0.11
34 23 0.64
35 5 0.14
36 4 0.11
ACGTcount: A:0.62, C:0.11, G:0.03, T:0.25
Consensus pattern (35 bp):
AAATAACAATAACTAAACTAAAGTAACTTAAACTA
Found at i:723151 original size:18 final size:20
Alignment explanation
Indices: 723115--723151 Score: 51
Period size: 18 Copynumber: 1.9 Consensus size: 20
723105 TGAAAGAAAT
*
723115 ATCTCTTAATTTTTTAAAAG
1 ATCTCTTAATTTTTCAAAAG
723135 ATCTCTT-A-TTTTCAAAA
1 ATCTCTTAATTTTTCAAAA
723152 TTCAAAGTAT
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
18 8 0.50
19 1 0.06
20 7 0.44
ACGTcount: A:0.35, C:0.14, G:0.03, T:0.49
Consensus pattern (20 bp):
ATCTCTTAATTTTTCAAAAG
Found at i:724285 original size:35 final size:35
Alignment explanation
Indices: 724246--724325 Score: 106
Period size: 35 Copynumber: 2.3 Consensus size: 35
724236 AAAGCAATGT
724246 TTTTGTAAAGGTTACGCCTAATCCTACAAAAGGCA
1 TTTTGTAAAGGTTACGCCTAATCCTACAAAAGGCA
* * * *
724281 TTTTGTAAAAGTTACGCTTGATCCTGCAAAAGGCA
1 TTTTGTAAAGGTTACGCCTAATCCTACAAAAGGCA
* *
724316 TGTTATAAAG
1 TTTTGTAAAG
724326 ATTATGTATG
Statistics
Matches: 38, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
35 38 1.00
ACGTcount: A:0.34, C:0.16, G:0.19, T:0.31
Consensus pattern (35 bp):
TTTTGTAAAGGTTACGCCTAATCCTACAAAAGGCA
Found at i:726725 original size:15 final size:15
Alignment explanation
Indices: 726705--726736 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
726695 GGTATATATA
726705 TTATAAGTAATAATT
1 TTATAAGTAATAATT
*
726720 TTATAAGTTATAATT
1 TTATAAGTAATAATT
726735 TT
1 TT
726737 TGTACTGTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (15 bp):
TTATAAGTAATAATT
Found at i:731745 original size:21 final size:21
Alignment explanation
Indices: 731716--731757 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
731706 TTGAGTCCTC
*
731716 TTCAACTCAATCTCCTCCAAG
1 TTCAACTCAATCCCCTCCAAG
*
731737 TTCACCTCAATCCCCTCCAAG
1 TTCAACTCAATCCCCTCCAAG
731758 ATGAAAGTTG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.43, G:0.05, T:0.26
Consensus pattern (21 bp):
TTCAACTCAATCCCCTCCAAG
Found at i:732265 original size:11 final size:11
Alignment explanation
Indices: 732238--732275 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
732228 TTTTGTGAGG
732238 ATGACA-TTTT
1 ATGACACTTTT
* *
732248 GTCACACTTTT
1 ATGACACTTTT
732259 ATGACACTTTT
1 ATGACACTTTT
732270 ATGACA
1 ATGACA
732276 GAGGAATGAT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
10 4 0.17
11 19 0.83
ACGTcount: A:0.29, C:0.18, G:0.11, T:0.42
Consensus pattern (11 bp):
ATGACACTTTT
Found at i:732640 original size:14 final size:11
Alignment explanation
Indices: 732612--732722 Score: 56
Period size: 11 Copynumber: 10.1 Consensus size: 11
732602 TGAATTATTC
732612 ATTATTAATAA
1 ATTATTAATAA
732623 ATTATTATATAA
1 ATTATTA-ATAA
732635 TGATTATT-A-AA
1 --ATTATTAATAA
* *
732646 ATGA-CAATAA
1 ATTATTAATAA
*
732656 ATTATTAAAATATT
1 ATTATT--AATA-A
732670 ATTATTTAATAA
1 ATTA-TTAATAA
* *
732682 ATCATTATTAA
1 ATTATTAATAA
*
732693 ATTATTAA-AT
1 ATTATTAATAA
732703 ATTATT-A-AA
1 ATTATTAATAA
732712 A-TATTAATAA
1 ATTATTAATAA
732722 A
1 A
732723 ATTGTTCTAA
Statistics
Matches: 76, Mismatches: 12, Indels: 25
0.67 0.11 0.22
Matches are distributed among these distances:
8 4 0.05
9 8 0.11
10 15 0.20
11 21 0.28
12 8 0.11
13 8 0.11
14 10 0.13
15 2 0.03
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.44
Consensus pattern (11 bp):
ATTATTAATAA
Found at i:732711 original size:18 final size:18
Alignment explanation
Indices: 732653--732718 Score: 80
Period size: 18 Copynumber: 3.6 Consensus size: 18
732643 AAAATGACAA
732653 TAAATTATTAAAATATTAT
1 TAAATTATT-AAATATTAT
* *
732672 T-ATTTAATAAATCATTAT
1 TAAATTATTAAAT-ATTAT
732690 TAAATTATTAAATATTAT
1 TAAATTATTAAATATTAT
*
732708 TAAAATATTAA
1 TAAATTATTAA
732719 TAAAATTGTT
Statistics
Matches: 40, Mismatches: 5, Indels: 5
0.80 0.10 0.10
Matches are distributed among these distances:
17 4 0.10
18 26 0.65
19 10 0.25
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (18 bp):
TAAATTATTAAATATTAT
Found at i:737903 original size:46 final size:46
Alignment explanation
Indices: 737813--737905 Score: 150
Period size: 46 Copynumber: 2.0 Consensus size: 46
737803 CCATAAACGC
* * *
737813 AGACAAGACTTACATTGCAAACATAATATCTAGTATGGTCAAACTT
1 AGACAAGACTTACACTGCAAACATAATATCTAGTATAGTAAAACTT
*
737859 AGACAAGACTTACACTGCAAACATAATATCTAGTCTAGTAAAACTT
1 AGACAAGACTTACACTGCAAACATAATATCTAGTATAGTAAAACTT
737905 A
1 A
737906 AATATAACAA
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
46 43 1.00
ACGTcount: A:0.43, C:0.18, G:0.12, T:0.27
Consensus pattern (46 bp):
AGACAAGACTTACACTGCAAACATAATATCTAGTATAGTAAAACTT
Found at i:740700 original size:15 final size:15
Alignment explanation
Indices: 740676--740708 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
740666 TAACTAATAG
*
740676 GTTTATTAATGATAC
1 GTTTAGTAATGATAC
740691 GTTTAGTAATGATAC
1 GTTTAGTAATGATAC
740706 GTT
1 GTT
740709 CCATAGCTAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.30, C:0.06, G:0.18, T:0.45
Consensus pattern (15 bp):
GTTTAGTAATGATAC
Found at i:744781 original size:30 final size:30
Alignment explanation
Indices: 744745--744806 Score: 88
Period size: 30 Copynumber: 2.1 Consensus size: 30
744735 ACGCAATTAA
*
744745 AAAGAATAAAAAGTTAAAGGGTGGAGTAGT
1 AAAGAATAAAAAGTTAAAGGGTGAAGTAGT
* * *
744775 AAAGAATGAAAAGTTAAGGGGTGAAGTTGT
1 AAAGAATAAAAAGTTAAAGGGTGAAGTAGT
744805 AA
1 AA
744807 TTATTAAAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.48, C:0.00, G:0.31, T:0.21
Consensus pattern (30 bp):
AAAGAATAAAAAGTTAAAGGGTGAAGTAGT
Found at i:745512 original size:28 final size:28
Alignment explanation
Indices: 745472--745535 Score: 119
Period size: 28 Copynumber: 2.3 Consensus size: 28
745462 AACTGCAAGG
745472 AAGAAAGTGTGAATGATTCACGAGTTCA
1 AAGAAAGTGTGAATGATTCACGAGTTCA
745500 AAGAAAGTGTGAATGATTCACGAGTTCA
1 AAGAAAGTGTGAATGATTCACGAGTTCA
*
745528 AGGAAAGT
1 AAGAAAGT
745536 TTAGGTAAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 35 1.00
ACGTcount: A:0.41, C:0.09, G:0.27, T:0.23
Consensus pattern (28 bp):
AAGAAAGTGTGAATGATTCACGAGTTCA
Found at i:756089 original size:11 final size:11
Alignment explanation
Indices: 756071--756112 Score: 52
Period size: 11 Copynumber: 3.9 Consensus size: 11
756061 AAAAAAAAAT
756071 TTAA-AAATTA
1 TTAATAAATTA
756081 TTAATAAATTTA
1 TTAATAAA-TTA
*
756093 TT-ATAAATTT
1 TTAATAAATTA
756103 TTAATAAATT
1 TTAATAAATT
756113 GTTATTAAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
10 8 0.29
11 15 0.54
12 5 0.18
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (11 bp):
TTAATAAATTA
Found at i:756093 original size:12 final size:12
Alignment explanation
Indices: 756078--756112 Score: 56
Period size: 11 Copynumber: 3.1 Consensus size: 12
756068 AATTTAAAAA
756078 TTATTAATAAAT
1 TTATTAATAAAT
756090 TTATT-ATAAAT
1 TTATTAATAAAT
756101 TT-TTAATAAAT
1 TTATTAATAAAT
756112 T
1 T
756113 GTTATTAAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
10 2 0.09
11 15 0.68
12 5 0.23
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (12 bp):
TTATTAATAAAT
Found at i:756099 original size:24 final size:24
Alignment explanation
Indices: 756071--756132 Score: 74
Period size: 22 Copynumber: 2.7 Consensus size: 24
756061 AAAAAAAAAT
756071 TTAAAAATTATTAATAAA-T-TTA
1 TTAAAAATTATTAATAAATTATTA
* * *
756093 TTATAAATTTTTAATAAATTGTTA
1 TTAAAAATTATTAATAAATTATTA
*
756117 TTAAAAATGATTAATA
1 TTAAAAATTATTAATA
756133 TTTTAAATAA
Statistics
Matches: 33, Mismatches: 5, Indels: 2
0.82 0.12 0.05
Matches are distributed among these distances:
22 16 0.48
23 1 0.03
24 16 0.48
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (24 bp):
TTAAAAATTATTAATAAATTATTA
Found at i:756121 original size:22 final size:22
Alignment explanation
Indices: 756075--756132 Score: 71
Period size: 24 Copynumber: 2.5 Consensus size: 22
756065 AAAAATTTAA
756075 AAATTATTAATAAATTTATTAT
1 AAATTATTAATAAATTTATTAT
* *
756097 AAATTTTTAATAAATTGTTATTAA
1 AAATTATTAATAAA-T-TTATTAT
*
756121 AAATGATTAATA
1 AAATTATTAATA
756133 TTTTAAATAA
Statistics
Matches: 30, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
22 13 0.43
23 1 0.03
24 16 0.53
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (22 bp):
AAATTATTAATAAATTTATTAT
Found at i:756170 original size:27 final size:27
Alignment explanation
Indices: 756116--756166 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 27
756106 ATAAATTGTT
* *
756116 ATTAAAAATGATTAATATTTTAAATAA
1 ATTAAAAAAGATTAATATTTCAAATAA
*
756143 ATTAAAAAAG-TTATTATTTCAAAT
1 ATTAAAAAAGATTAATATTTCAAAT
756167 TAAAGTTTTA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
26 12 0.57
27 9 0.43
ACGTcount: A:0.53, C:0.02, G:0.04, T:0.41
Consensus pattern (27 bp):
ATTAAAAAAGATTAATATTTCAAATAA
Found at i:766577 original size:30 final size:30
Alignment explanation
Indices: 766543--766649 Score: 117
Period size: 30 Copynumber: 3.6 Consensus size: 30
766533 ATTATTAGTA
* *
766543 ATAAAGACTTATTTGATTCAAAATAAAAAT
1 ATAAAAACTTATTTAATTCAAAATAAAAAT
* *
766573 ATAAAAATTTATTTAATTTAAAATAAAAAT
1 ATAAAAACTTATTTAATTCAAAATAAAAAT
* * * * *
766603 TTAAAAACTTAATAAAAT-ATAATAAAAAT
1 ATAAAAACTTATTTAATTCAAAATAAAAAT
*
766632 ATAAAAATTTATTTAATT
1 ATAAAAACTTATTTAATT
766650 TTTTTTTAAA
Statistics
Matches: 62, Mismatches: 15, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
29 23 0.37
30 39 0.63
ACGTcount: A:0.58, C:0.03, G:0.02, T:0.37
Consensus pattern (30 bp):
ATAAAAACTTATTTAATTCAAAATAAAAAT
Found at i:768550 original size:26 final size:26
Alignment explanation
Indices: 768512--768571 Score: 75
Period size: 26 Copynumber: 2.3 Consensus size: 26
768502 TTAAACATTA
* *
768512 TTATGATTAAAATATTTATAATTTAT
1 TTATAATTAAAATATTAATAATTTAT
* *
768538 TTATAATTTAAATATTAATATTTTAT
1 TTATAATTAAAATATTAATAATTTAT
*
768564 TGATAATT
1 TTATAATT
768572 CAAACTTTTT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.42, C:0.00, G:0.03, T:0.55
Consensus pattern (26 bp):
TTATAATTAAAATATTAATAATTTAT
Found at i:772372 original size:23 final size:24
Alignment explanation
Indices: 772342--772408 Score: 84
Period size: 23 Copynumber: 2.9 Consensus size: 24
772332 GTTGGGTCCG
*
772342 TTAAAAACCATGGGTTATGCTC-A
1 TTAAAAACCATGGGTTGTGCTCTA
* * *
772365 TTACAAACCATGAGTTGTGC-CTG
1 TTAAAAACCATGGGTTGTGCTCTA
772388 TTAAAAACCATGGGTTGTGCT
1 TTAAAAACCATGGGTTGTGCT
772409 TGCTCTTGTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
22 1 0.03
23 35 0.97
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.31
Consensus pattern (24 bp):
TTAAAAACCATGGGTTGTGCTCTA
Found at i:778642 original size:24 final size:25
Alignment explanation
Indices: 778576--778650 Score: 66
Period size: 24 Copynumber: 3.0 Consensus size: 25
778566 AGTTTTGAAA
778576 AAAGAAAAAAGAGAAAAAGAAAGCAAAT
1 AAAGAAAAAAG-G-AAAAGAAA-CAAAT
* * *
778604 --AGAGAAATGGGAAAGAAA-AAAT
1 AAAGAAAAAAGGAAAAGAAACAAAT
778626 AAAGAAAAAAGGAAAAGAAGACAAA
1 AAAGAAAAAAGGAAAAGAA-ACAAA
778651 AGAGGAACAT
Statistics
Matches: 37, Mismatches: 6, Indels: 10
0.70 0.11 0.19
Matches are distributed among these distances:
22 4 0.11
24 21 0.57
25 2 0.05
26 10 0.27
ACGTcount: A:0.72, C:0.03, G:0.21, T:0.04
Consensus pattern (25 bp):
AAAGAAAAAAGGAAAAGAAACAAAT
Found at i:779208 original size:15 final size:15
Alignment explanation
Indices: 779188--779229 Score: 75
Period size: 15 Copynumber: 2.8 Consensus size: 15
779178 AAATGTGTAC
779188 ATTTCTTTTCTTCCA
1 ATTTCTTTTCTTCCA
779203 ATTTCTTTTCTTCCA
1 ATTTCTTTTCTTCCA
*
779218 ATTTCTTCTCTT
1 ATTTCTTTTCTT
779230 TTTATTAAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
15 26 1.00
ACGTcount: A:0.12, C:0.26, G:0.00, T:0.62
Consensus pattern (15 bp):
ATTTCTTTTCTTCCA
Found at i:779675 original size:87 final size:87
Alignment explanation
Indices: 779567--779797 Score: 247
Period size: 87 Copynumber: 2.6 Consensus size: 87
779557 TTAAGACAAC
* * * * *
779567 TCTTGTTTTTAATTAAAACAAAATATTTTATCTTGTCTAAATTAAGATAAATATGTTTTCTTATC
1 TCTTGTCTTAAATTAAGACAAAATATTTT-TCTTGTCTAAATTAAGACAAACATGTTTTCTTATC
*
779632 TAGATTAAGATAAAAAT-ATTTT
65 TAAATTAAGATAAAAATGATTTT
* * *
779654 TCTTGTCTTAAATTAAGAC-AAATATATTTTCTTGTGC-AAATTAAAACCAAACATGATTTCTTG
1 TCTTGTCTTAAATTAAGACAAAATAT-TTTTCTTGT-CTAAATTAAGA-CAAACATGTTTTCTTA
* *
779717 TCTAAATTAAGATAAACATGTTTTT
63 TCTAAATTAAGATAAAAATGATTTT
* * *
779742 TTTTGTC-TAAATTAAGACACAACATA-TTTTCCTGTTTAAATTAAGACAAACATGTT
1 TCTTGTCTTAAATTAAGACA-AA-ATATTTTTCTTGTCTAAATTAAGACAAACATGTT
779798 AAAGCTGTCA
Statistics
Matches: 120, Mismatches: 16, Indels: 16
0.79 0.11 0.11
Matches are distributed among these distances:
86 20 0.17
87 69 0.57
88 26 0.22
89 2 0.02
90 3 0.03
ACGTcount: A:0.38, C:0.11, G:0.08, T:0.43
Consensus pattern (87 bp):
TCTTGTCTTAAATTAAGACAAAATATTTTTCTTGTCTAAATTAAGACAAACATGTTTTCTTATCT
AAATTAAGATAAAAATGATTTT
Found at i:779697 original size:58 final size:58
Alignment explanation
Indices: 779577--779797 Score: 211
Period size: 58 Copynumber: 3.8 Consensus size: 58
779567 TCTTGTTTTT
*
779577 AATTAA-AACAAAATATTTTATCTTGTCTAAATTAAGATAAATATGTTTTCTTAT-CTA
1 AATTAAGAACAAAATATTTT-TCTTGTCTAAATTAAGACAAATATGTTTTCTTATGCTA
* * *
779634 GATTAAGATA-AAAATATTTTTCTTGTCTTAAATTAAGACAAATATATTTTCTTGTGC-A
1 AATTAAGA-ACAAAATATTTTTCTTGTC-TAAATTAAGACAAATATGTTTTCTTATGCTA
* * * * * * *
779692 AATTAA-AACCAAACATGATTTCTTGTCTAAATTAAGATAAACATGTTTTTTTTTGTCTA
1 AATTAAGAACAAAATAT-TTTTCTTGTCTAAATTAAGACAAATATGTTTTCTTATG-CTA
* * * *
779751 AATTAAGACACAACATA-TTTTCCTGTTTAAATTAAGACAAACATGTT
1 AATTAAGA-ACAAAATATTTTTCTTGTCTAAATTAAGACAAATATGTT
779798 AAAGCTGTCA
Statistics
Matches: 134, Mismatches: 20, Indels: 18
0.78 0.12 0.10
Matches are distributed among these distances:
56 1 0.01
57 41 0.31
58 51 0.38
59 35 0.26
60 1 0.01
61 5 0.04
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.41
Consensus pattern (58 bp):
AATTAAGAACAAAATATTTTTCTTGTCTAAATTAAGACAAATATGTTTTCTTATGCTA
Found at i:779782 original size:29 final size:28
Alignment explanation
Indices: 779577--779794 Score: 190
Period size: 29 Copynumber: 7.5 Consensus size: 28
779567 TCTTGTTTTT
*
779577 AATTAAAACAAA-ATATTTTATCTTGTCTA
1 AATTAAGACAAACATA-TTT-TCTTGTCTA
* * * *
779606 AATTAAGATAAATATGTTTTCTTATCTA
1 AATTAAGACAAACATATTTTCTTGTCTA
* * *
779634 GATTAAGATAAAAATATTTTTCTTGTCTTA
1 AATTAAGACAAACATA-TTTTCTTGTC-TA
*
779664 AATTAAGACAAATATATTTTCTTGTGC-A
1 AATTAAGACAAACATATTTTCTTGT-CTA
*
779692 AATTAAAACCAAACATGA-TTTCTTGTCTA
1 AATTAAGA-CAAACAT-ATTTTCTTGTCTA
* * *
779721 AATTAAGATAAACATGTTTTTTTTTGTCTA
1 AATTAAGACAAACA--TATTTTCTTGTCTA
* *
779751 AATTAAGACACAACATATTTTCCTGTTTA
1 AATTAAGACA-AACATATTTTCTTGTCTA
779780 AATTAAGACAAACAT
1 AATTAAGACAAACAT
779795 GTTAAAGCTG
Statistics
Matches: 156, Mismatches: 22, Indels: 23
0.78 0.11 0.11
Matches are distributed among these distances:
28 40 0.26
29 73 0.47
30 39 0.25
31 4 0.03
ACGTcount: A:0.40, C:0.11, G:0.08, T:0.41
Consensus pattern (28 bp):
AATTAAGACAAACATATTTTCTTGTCTA
Found at i:784715 original size:35 final size:35
Alignment explanation
Indices: 784639--784808 Score: 130
Period size: 35 Copynumber: 4.9 Consensus size: 35
784629 TCTCAAGCAC
* * *
784639 TTGATTAAAATTGTTTAATTAAATTA-T--GCTTAA
1 TTGATT-AAATTATTTAATTAAGTTATTGGGCCTAA
* * *
784672 TTCATTAAATTGTTTAATTAAGTCATTGGGCCTAA
1 TTGATTAAATTATTTAATTAAGTTATTGGGCCTAA
* *** * ***
784707 TTAATTAAATTAAACAATTAAATTATTAACCCTAA
1 TTGATTAAATTATTTAATTAAGTTATTGGGCCTAA
* *
784742 TTGATTAGATTTTTTAATTAAGTTATTGGGCCTAA
1 TTGATTAAATTATTTAATTAAGTTATTGGGCCTAA
***
784777 TTGATTAAATTAAACAATTAAGTTAGTTGGGC
1 TTGATTAAATTATTTAATTAAGTTA-TTGGGC
784809 TTCTTAAGGA
Statistics
Matches: 104, Mismatches: 29, Indels: 5
0.75 0.21 0.04
Matches are distributed among these distances:
32 17 0.16
33 6 0.06
35 75 0.72
36 6 0.06
ACGTcount: A:0.38, C:0.08, G:0.12, T:0.43
Consensus pattern (35 bp):
TTGATTAAATTATTTAATTAAGTTATTGGGCCTAA
Found at i:786137 original size:36 final size:36
Alignment explanation
Indices: 786090--786170 Score: 144
Period size: 36 Copynumber: 2.2 Consensus size: 36
786080 TTGTGGATTG
*
786090 TGAAAAAGCCATTGCAAGGGTTATCGCTTGATCCCA
1 TGAAAAAGCCATTGCAAGGGTTATCGCTTCATCCCA
*
786126 TGAAAAAGCCATTGCAAGGGTTATCGCTTCATCTCA
1 TGAAAAAGCCATTGCAAGGGTTATCGCTTCATCCCA
786162 TGAAAAAGC
1 TGAAAAAGC
786171 AAGAATCCCT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
36 43 1.00
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.25
Consensus pattern (36 bp):
TGAAAAAGCCATTGCAAGGGTTATCGCTTCATCCCA
Found at i:794706 original size:31 final size:31
Alignment explanation
Indices: 794671--794770 Score: 75
Period size: 31 Copynumber: 3.2 Consensus size: 31
794661 ATCCGAGATG
794671 TTTAAGTTCAATTATGTTGGCACAAAAATAT
1 TTTAAGTTCAATTATGTTGGCACAAAAATAT
* * *
794702 TTTAA-TCTCAATT-TAGTTGGCATCCAAGAT-G
1 TTTAAGT-TCAATTAT-GTTGGCA-CAAAAATAT
*
794733 TTTAAG-TCTAGTTATGTTGGCACGAAAAA-AGT
1 TTTAAGTTC-AATTATGTTGGCAC-AAAAATA-T
794765 TTTAAG
1 TTTAAG
794771 CCCAACTTGC
Statistics
Matches: 53, Mismatches: 7, Indels: 17
0.69 0.09 0.22
Matches are distributed among these distances:
30 5 0.09
31 36 0.68
32 12 0.23
ACGTcount: A:0.34, C:0.11, G:0.17, T:0.38
Consensus pattern (31 bp):
TTTAAGTTCAATTATGTTGGCACAAAAATAT
Found at i:795066 original size:93 final size:93
Alignment explanation
Indices: 794945--795164 Score: 262
Period size: 93 Copynumber: 2.4 Consensus size: 93
794935 TTGGCAAGAG
* * ** * * *
794945 AAGAGTTTTAAGCCCAATT-TAGTTGGCATCCGAGATGTTTAAGTCCAGTTATGTTAGCAAGAAA
1 AAGATTTTTAAGTCCAATTAT-GTTGGCATCAAAAAAGTTTAAGTCCAATTATGTTAGCAAGAAA
* *
795009 AGATTTTAAGCCCAATTTAGTTAGCATCT
65 AGATTTTAAGCCCAATTTAGCTAGCATCC
* * * *
795038 AAGATTTTTAAGTCCAATTATGTTGGCATGAAAAAAGTTTTAGTCCAATTATGTTGGCATGAAAA
1 AAGATTTTTAAGTCCAATTATGTTGGCATCAAAAAAGTTTAAGTCCAATTATGTTAGCAAGAAAA
795103 GATTTTAAGCCCAATTTAGCTAGCATCC
66 GATTTTAAGCCCAATTTAGCTAGCATCC
* ** * *
795131 AAGATGTTTAAGTCTGATTATATTGGCATGAAAA
1 AAGATTTTTAAGTCCAATTATGTTGGCATCAAAA
795165 GTGTTTAATC
Statistics
Matches: 109, Mismatches: 17, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
93 108 0.99
94 1 0.01
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (93 bp):
AAGATTTTTAAGTCCAATTATGTTGGCATCAAAAAAGTTTAAGTCCAATTATGTTAGCAAGAAAA
GATTTTAAGCCCAATTTAGCTAGCATCC
Found at i:795071 original size:62 final size:62
Alignment explanation
Indices: 794573--795071 Score: 509
Period size: 62 Copynumber: 8.0 Consensus size: 62
794563 ACAACTAATC
* * * * * *
794573 AAGATTTTCAGCCCAATTTAATTGGCATCCAAGAGGTTTAAGTCTAGTTATGTTCGCACAAA
1 AAGATTTTAAGCCCAATTTAGTTAGCATCCAAGATGTTTAAGTCTAGTTATGTTGGCACGAA
** *** *** * * *
794635 AAGAGATTAAGTTTAATTTAGCCGGCATCCGAGATGTTTAAGT-TCAATTATGTTGGCACAAA
1 AAGATTTTAAGCCCAATTTAGTTAGCATCCAAGATGTTTAAGTCT-AGTTATGTTGGCACGAA
* * * *
794697 AATATTTTAATCTCAATTTAGTTGGCATCCAAGATGTTTAAGTCTAGTTATGTTGGCACGAA
1 AAGATTTTAAGCCCAATTTAGTTAGCATCCAAGATGTTTAAGTCTAGTTATGTTGGCACGAA
* * * * **
794759 AAAAGTTTTAAGCCCAACTT-GCTTA-CATCTAAGATGTTTTAGTCTAGTTATGTTGGCATAAA
1 AAGA-TTTTAAGCCCAATTTAG-TTAGCATCCAAGATGTTTAAGTCTAGTTATGTTGGCACGAA
* * * *
794821 AAGATTTTAAGCCCAATTTAGCTAGCATTCAAGATGTTTAACTTTAGTTATGTTGGCACGAA
1 AAGATTTTAAGCCCAATTTAGTTAGCATCCAAGATGTTTAAGTCTAGTTATGTTGGCACGAA
* * * * * * *
794883 AAGATTTTAAGCCTAATTTAGTTAGCTTCCAAAATGTTTAAGTCTAATAATGTTGGCAAGAG
1 AAGATTTTAAGCCCAATTTAGTTAGCATCCAAGATGTTTAAGTCTAGTTATGTTGGCACGAA
* * * * *
794945 AAGAGTTTTAAGCCCAATTTAGTTGGCATCCGAGATGTTTAAGTCCAGTTATGTTAGCAAGAA
1 AAGA-TTTTAAGCCCAATTTAGTTAGCATCCAAGATGTTTAAGTCTAGTTATGTTGGCACGAA
* * * * *
795008 AAGATTTTAAGCCCAATTTAGTTAGCATCTAAGATTTTTAAGTCCAATTATGTTGGCATGAA
1 AAGATTTTAAGCCCAATTTAGTTAGCATCCAAGATGTTTAAGTCTAGTTATGTTGGCACGAA
795070 AA
1 AA
795072 AAGTTTTAGT
Statistics
Matches: 359, Mismatches: 71, Indels: 14
0.81 0.16 0.03
Matches are distributed among these distances:
61 17 0.05
62 275 0.77
63 67 0.19
ACGTcount: A:0.33, C:0.14, G:0.18, T:0.35
Consensus pattern (62 bp):
AAGATTTTAAGCCCAATTTAGTTAGCATCCAAGATGTTTAAGTCTAGTTATGTTGGCACGAA
Found at i:795141 original size:31 final size:32
Alignment explanation
Indices: 794806--795142 Score: 143
Period size: 31 Copynumber: 10.8 Consensus size: 32
794796 TTTAGTCTAG
* *
794806 TTATGTTGGCATAAAAAGAT-TTTAAGCCCAAT
1 TTATGTTAGCAT-CAAAGATGTTTAAGCCCAAT
* *** *
794838 TTA-GCTAGCATTC-AAGATGTTTAA-CTTTAG
1 TTATGTTAGCA-TCAAAGATGTTTAAGCCCAAT
* *
794868 TTATGTTGGCA-CGAAAAGAT-TTTAAGCCTAAT
1 TTATGTTAGCATC--AAAGATGTTTAAGCCCAAT
* * *
794900 TTA-GTTAGCTTCCAAA-ATGTTTAAGTCTAA-
1 TTATGTTAGCAT-CAAAGATGTTTAAGCCCAAT
* * **
794930 TAATGTTGGCAAGAGAAGA-GTTTTAAGCCCAAT
1 TTATGTTAGCATCA-AAGATG-TTTAAGCCCAAT
* ** * *
794963 TTA-GTTGGCATCCGAGATGTTTAAGTCC-AG
1 TTATGTTAGCATCAAAGATGTTTAAGCCCAAT
**
794993 TTATGTTAGCAAGAAAAGAT-TTTAAGCCCAAT
1 TTATGTTAGC-ATCAAAGATGTTTAAGCCCAAT
* * *
795025 TTA-GTTAGCATCTAAGATTTTTAAGTCCAA-
1 TTATGTTAGCATCAAAGATGTTTAAGCCCAAT
* * * * * *
795055 TTATGTTGGCATGAAAAAAGTTTTAGTCCAA-
1 TTATGTTAGCATCAAAGATGTTTAAGCCCAAT
* *
795086 TTATGTTGGCATGAAAAGAT-TTTAAGCCCAAT
1 TTATGTTAGCAT-CAAAGATGTTTAAGCCCAAT
* *
795118 TTA-GCTAGCATCCAAGATGTTTAAG
1 TTATGTTAGCATCAAAGATGTTTAAG
795143 TCTGATTATA
Statistics
Matches: 225, Mismatches: 56, Indels: 49
0.68 0.17 0.15
Matches are distributed among these distances:
29 1 0.00
30 33 0.15
31 139 0.62
32 49 0.22
33 3 0.01
ACGTcount: A:0.34, C:0.13, G:0.18, T:0.35
Consensus pattern (32 bp):
TTATGTTAGCATCAAAGATGTTTAAGCCCAAT
Found at i:795151 original size:62 final size:62
Alignment explanation
Indices: 795091--795463 Score: 301
Period size: 62 Copynumber: 6.0 Consensus size: 62
795081 TCCAATTATG
*
795091 TTGGCATGAAAAGATTTTAAGCCCAATTTAGCTAGCATCCAAGATGTTTAAGTCT-GATTATA
1 TTGGCATGAAAAGATTTTAAGCCCAATTTAGCTAGCATCCAAGATGTTTAAGTCTAG-TTACA
* * * * * **
795153 TTGGCATGAAAAG-TGTTTAATCCTAATTTAG-TCGGCATCCAAGATGTTTCAGTCCAGTTATG
1 TTGGCATGAAAAGAT-TTTAAGCCCAATTTAGCT-AGCATCCAAGATGTTTAAGTCTAGTTACA
* * * *
795215 TTGGCATGAAAAAAGTTATGCTTAAACCCAATTTAGCTAGCATCCAAGATGTCTAA-TGCTAGCT
1 TTGGCATG--AAAAG--AT-TTTAAGCCCAATTTAGCTAGCATCCAAGATGTTTAAGT-CTAGTT
795279 ACA
60 ACA
* * * * *
795282 TTGGCA-CAAAACGAGTTTAAGCTCAATTTAGCTAGCATCCTAGACG-TTAAGTCTAGTTACA
1 TTGGCATGAAAA-GATTTTAAGCCCAATTTAGCTAGCATCCAAGATGTTTAAGTCTAGTTACA
* * * * * ** * *
795343 TTGGCA-CATAAGATTCTAAGCCCAATTTAGTTGGCATCCACTATGTTTAAGTCCATTTACA
1 TTGGCATGAAAAGATTTTAAGCCCAATTTAGCTAGCATCCAAGATGTTTAAGTCTAGTTACA
** * * * * * *
795404 ACGCCATGAAAAGAGTTTAAGCCCAATTTGGCTAGCATTCAAGGTGTTTAAGACTAGTTA
1 TTGGCATGAAAAGATTTTAAGCCCAATTTAGCTAGCATCCAAGATGTTTAAGTCTAGTTA
795464 AGTAACACAA
Statistics
Matches: 243, Mismatches: 54, Indels: 28
0.75 0.17 0.09
Matches are distributed among these distances:
60 25 0.10
61 39 0.16
62 124 0.51
63 2 0.01
64 9 0.04
65 1 0.00
66 1 0.00
67 41 0.17
68 1 0.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Consensus pattern (62 bp):
TTGGCATGAAAAGATTTTAAGCCCAATTTAGCTAGCATCCAAGATGTTTAAGTCTAGTTACA
Found at i:795190 original size:93 final size:92
Alignment explanation
Indices: 794982--795190 Score: 251
Period size: 93 Copynumber: 2.2 Consensus size: 92
794972 ATCCGAGATG
* ** * * * *
794982 TTTAAGTCCAGTTATGTTAGCAAGAAAAGATTTTAAGCCCAATTTAGTTAGCATCTAAGATTTTT
1 TTTAA-TCCAATTATGTCGGCATGAAAAGATTTTAAGCCCAATTTAGCTAGCATCCAAGATGTTT
*
795047 AAGTCCAATTATGTTGGCATGAAAAAAGT
65 AAGTCCAATTATATTGGCATG-AAAAAGT
* *
795076 TTTAGTCCAATTATGTTGGCATGAAAAGATTTTAAGCCCAATTTAGCTAGCATCCAAGATGTTTA
1 TTTAATCCAATTATGTCGGCATGAAAAGATTTTAAGCCCAATTTAGCTAGCATCCAAGATGTTTA
**
795141 AGTCTGATTATATTGGCATG-AAAAGT
66 AGTCCAATTATATTGGCATGAAAAAGT
795167 GTTTAATCCTAATT-TAGTCGGCAT
1 -TTTAATCC-AATTAT-GTCGGCAT
795191 CCAAGATGTT
Statistics
Matches: 100, Mismatches: 12, Indels: 7
0.84 0.10 0.06
Matches are distributed among these distances:
91 6 0.06
92 8 0.08
93 82 0.82
94 4 0.04
ACGTcount: A:0.33, C:0.13, G:0.18, T:0.36
Consensus pattern (92 bp):
TTTAATCCAATTATGTCGGCATGAAAAGATTTTAAGCCCAATTTAGCTAGCATCCAAGATGTTTA
AGTCCAATTATATTGGCATGAAAAAGT
Found at i:795310 original size:129 final size:124
Alignment explanation
Indices: 795074--795312 Score: 279
Period size: 129 Copynumber: 1.9 Consensus size: 124
795064 CATGAAAAAA
* * * *
795074 GTTTTAGTCCAATTATGTTGGCATGAAAAGATTTTAAGCCCAATTTAGCTAGCATCCAAGATGTT
1 GTTTCAGTCCAATTATGTTGGCATGAAAAGATCTTAAACCCAATTTAGCTAGCATCCAAGATGTC
* * * * *
795139 TAAGTCTGATTATATTGGCATGAAAAGTGTTTAATCCTAATTTAGTCGGCATCCAAGAT
66 TAAGTCTGACTACATTGGCATCAAAAGAGTTTAAGCCTAATTTAGTCGGCATCCAAGAT
*
795198 GTTTCAGTCCAGTTATGTTGGCATGAAAAAAGTTATGCTTAAACCCAATTTAGCTAGCATCCAAG
1 GTTTCAGTCCAATTATGTTGGCATG--AAAAG--AT-CTTAAACCCAATTTAGCTAGCATCCAAG
795263 ATGTCTAA-TGCT-AGCTACATTGGCA-CAAAACGAGTTTAAG-CTCAATTTAG
61 ATGTCTAAGT-CTGA-CTACATTGGCATCAAAA-GAGTTTAAGCCT-AATTTAG
795313 CTAGCATCCT
Statistics
Matches: 96, Mismatches: 10, Indels: 13
0.81 0.08 0.11
Matches are distributed among these distances:
124 23 0.24
126 5 0.05
128 10 0.10
129 58 0.60
ACGTcount: A:0.32, C:0.16, G:0.18, T:0.33
Consensus pattern (124 bp):
GTTTCAGTCCAATTATGTTGGCATGAAAAGATCTTAAACCCAATTTAGCTAGCATCCAAGATGTC
TAAGTCTGACTACATTGGCATCAAAAGAGTTTAAGCCTAATTTAGTCGGCATCCAAGAT
Found at i:796805 original size:35 final size:35
Alignment explanation
Indices: 796762--796834 Score: 119
Period size: 35 Copynumber: 2.1 Consensus size: 35
796752 CTTACACCTG
* *
796762 ATCTTGCAAAAGGCAAGTTGTAGAGGTTATGCCTA
1 ATCTTGCAAAAGGCAAGTTGCAAAGGTTATGCCTA
*
796797 ATCTTGCAAAAGGCATGTTGCAAAGGTTATGCCTA
1 ATCTTGCAAAAGGCAAGTTGCAAAGGTTATGCCTA
796832 ATC
1 ATC
796835 CTGTTGAAAA
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.32, C:0.16, G:0.23, T:0.29
Consensus pattern (35 bp):
ATCTTGCAAAAGGCAAGTTGCAAAGGTTATGCCTA
Found at i:797957 original size:30 final size:26
Alignment explanation
Indices: 797913--797988 Score: 75
Period size: 25 Copynumber: 2.8 Consensus size: 26
797903 TGGGGAAAAA
797913 AGAGACAAAG-AAAAGAAAAGAGAGAAGTGG
1 AGAGA-AAAGAAAAAGAAAAGAGA-AA---G
797943 AGAGAAAAGAAAAAGAAAA-AGAAAG
1 AGAGAAAAGAAAAAGAAAAGAGAAAG
* *
797968 AAAGAAAAGAAAAATAAAAGA
1 AGAGAAAAGAAAAAGAAAAGA
797989 AAATAAAGAA
Statistics
Matches: 42, Mismatches: 2, Indels: 8
0.81 0.04 0.15
Matches are distributed among these distances:
25 18 0.43
26 1 0.02
28 2 0.05
29 7 0.17
30 14 0.33
ACGTcount: A:0.71, C:0.01, G:0.25, T:0.03
Consensus pattern (26 bp):
AGAGAAAAGAAAAAGAAAAGAGAAAG
Done.