Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr04 ID=Chr04-JGI_221_v2.0
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 62178258
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 912357 characters in sequence are not A, C, G, or T
File 143 of 198
Found at i:45492394 original size:17 final size:18
Alignment explanation
Indices: 45492362--45492395 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
45492352 AATTTCTTTT
45492362 CAATTTATACCCTAATTC
1 CAATTTATACCCTAATTC
*
45492380 CAATTTA-ATCCTAATT
1 CAATTTATACCCTAATT
45492396 AGCTCATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.35, C:0.24, G:0.00, T:0.41
Consensus pattern (18 bp):
CAATTTATACCCTAATTC
Found at i:45492858 original size:2 final size:2
Alignment explanation
Indices: 45492851--45492875 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
45492841 TACTTTATTT
45492851 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 T
45492876 TAGTTAATAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:45493096 original size:13 final size:13
Alignment explanation
Indices: 45493080--45493122 Score: 61
Period size: 13 Copynumber: 3.3 Consensus size: 13
45493070 ATAGAAAACC
45493080 ATAATAATAATTA
1 ATAATAATAATTA
*
45493093 ATAATTATAATT-
1 ATAATAATAATTA
45493105 ATAATAATAAATTA
1 ATAATAAT-AATTA
45493119 ATAA
1 ATAA
45493123 CAAAATCTCA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
12 7 0.27
13 15 0.58
14 4 0.15
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (13 bp):
ATAATAATAATTA
Found at i:45493527 original size:17 final size:18
Alignment explanation
Indices: 45493499--45493542 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
45493489 ATAATTGTTT
45493499 TAAAAGTAAAAC-AGAAAG
1 TAAAA-TAAAACTAGAAAG
45493517 TAAAATAAAACTAGAAAG
1 TAAAATAAAACTAGAAAG
45493535 --AAATAAAA
1 TAAAATAAAA
45493543 GTAAACCATA
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.32
17 6 0.24
18 11 0.44
ACGTcount: A:0.70, C:0.05, G:0.11, T:0.14
Consensus pattern (18 bp):
TAAAATAAAACTAGAAAG
Found at i:45493629 original size:17 final size:16
Alignment explanation
Indices: 45493590--45493628 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 16
45493580 TAAAACTAAT
45493590 ATTTTTTAAAAATTCA
1 ATTTTTTAAAAATTCA
*
45493606 ATTTTTTACAATATTC-
1 ATTTTTTA-AAAATTCA
45493622 ATTTTTT
1 ATTTTTT
45493629 TCCTTAAAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.33, C:0.08, G:0.00, T:0.59
Consensus pattern (16 bp):
ATTTTTTAAAAATTCA
Found at i:45494171 original size:12 final size:13
Alignment explanation
Indices: 45494132--45494171 Score: 55
Period size: 13 Copynumber: 3.1 Consensus size: 13
45494122 CGGCCCAGCC
45494132 ATATTAATTTTTT
1 ATATTAATTTTTT
*
45494145 ATATTATTATTTTT
1 ATATTAAT-TTTTT
45494159 ATA-TAATTTTTT
1 ATATTAATTTTTT
45494171 A
1 A
45494172 AAAATATTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 6 0.25
13 10 0.42
14 8 0.33
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.68
Consensus pattern (13 bp):
ATATTAATTTTTT
Found at i:45505406 original size:46 final size:46
Alignment explanation
Indices: 45505353--45505571 Score: 377
Period size: 46 Copynumber: 4.8 Consensus size: 46
45505343 ACAATGCTAT
*
45505353 AACTCAGTATGGTTTTCTTCATTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
45505399 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
* *
45505445 AACTCAGTATGGTTTTCGTT-ATTGAAATACCATACCTACTTCTCAC
1 AACTCAGTATGGTTTTC-TTCACTGAAATACCATACCTACTTTTCAC
*
45505491 AACTCAGTATGGTTTTCTTTACTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
*
45505537 AACTCAGTATGGTTTTCTTTACTGAAATACCATAC
1 AACTCAGTATGGTTTTCTTCACTGAAATACCATAC
45505572 TTACGTTCCA
Statistics
Matches: 166, Mismatches: 5, Indels: 4
0.95 0.03 0.02
Matches are distributed among these distances:
45 2 0.01
46 162 0.98
47 2 0.01
ACGTcount: A:0.29, C:0.24, G:0.10, T:0.38
Consensus pattern (46 bp):
AACTCAGTATGGTTTTCTTCACTGAAATACCATACCTACTTTTCAC
Found at i:45513018 original size:21 final size:21
Alignment explanation
Indices: 45512994--45513044 Score: 59
Period size: 21 Copynumber: 2.4 Consensus size: 21
45512984 AAAATAGTAG
*
45512994 TAAAAGTGATATTA-ATTATTA
1 TAAAAGTGAGATTAGA-TATTA
*
45513015 TAAAAATGAGATTAGATATTA
1 TAAAAGTGAGATTAGATATTA
*
45513036 TAATAGTGA
1 TAAAAGTGA
45513045 AATCGATATC
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 24 0.96
22 1 0.04
ACGTcount: A:0.49, C:0.00, G:0.14, T:0.37
Consensus pattern (21 bp):
TAAAAGTGAGATTAGATATTA
Found at i:45515733 original size:9 final size:9
Alignment explanation
Indices: 45515719--45515803 Score: 82
Period size: 9 Copynumber: 9.4 Consensus size: 9
45515709 TTTGGTTAAA
45515719 AATTAACCG
1 AATTAACCG
*
45515728 AATTAACAG
1 AATTAACCG
* *
45515737 AATTATCCA
1 AATTAACCG
45515746 AATTAACCG
1 AATTAACCG
*
45515755 AATTACCCG
1 AATTAACCG
* *
45515764 AATTAATCA
1 AATTAACCG
45515773 AATT-ACCTG
1 AATTAACC-G
**
45515782 AATTAATTG
1 AATTAACCG
45515791 AATTAACCG
1 AATTAACCG
45515800 AATT
1 AATT
45515804 GAATCACTAC
Statistics
Matches: 58, Mismatches: 16, Indels: 4
0.74 0.21 0.05
Matches are distributed among these distances:
8 2 0.03
9 55 0.95
10 1 0.02
ACGTcount: A:0.45, C:0.18, G:0.08, T:0.29
Consensus pattern (9 bp):
AATTAACCG
Found at i:45516134 original size:18 final size:18
Alignment explanation
Indices: 45516108--45516150 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
45516098 TTTATGATTG
* *
45516108 GGTTGGGTTGGGTAATTA
1 GGTTTGGTTGGATAATTA
* *
45516126 GGTTTGGTTGGATACTTG
1 GGTTTGGTTGGATAATTA
45516144 GGTTTGG
1 GGTTTGG
45516151 ACTGAGTTTA
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.12, C:0.02, G:0.44, T:0.42
Consensus pattern (18 bp):
GGTTTGGTTGGATAATTA
Found at i:45517997 original size:2 final size:2
Alignment explanation
Indices: 45517984--45518054 Score: 133
Period size: 2 Copynumber: 35.5 Consensus size: 2
45517974 CAATAATAAA
*
45517984 AC AC AC AT AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC
45518026 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
45518055 TATATATAAT
Statistics
Matches: 67, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
2 67 1.00
ACGTcount: A:0.51, C:0.48, G:0.00, T:0.01
Consensus pattern (2 bp):
AC
Found at i:45521536 original size:20 final size:20
Alignment explanation
Indices: 45521495--45521542 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
45521485 TTATAGTTAA
* *
45521495 TTAATTATTATTGTGCATTT
1 TTAATTATTATTGTGAAATT
45521515 TTAATTATTATT-TGAAAATT
1 TTAATTATTATTGTG-AAATT
*
45521535 TTTATTAT
1 TTAATTAT
45521543 AATATCTGAA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
19 2 0.08
20 22 0.92
ACGTcount: A:0.31, C:0.02, G:0.06, T:0.60
Consensus pattern (20 bp):
TTAATTATTATTGTGAAATT
Found at i:45521552 original size:22 final size:21
Alignment explanation
Indices: 45521511--45521553 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 21
45521501 ATTATTGTGC
*
45521511 ATTTTTAATTATTATTTGAAA
1 ATTTTTAATTATTATCTGAAA
45521532 ATTTTT-ATTATAATATCTGAAA
1 ATTTTTAATTAT--TATCTGAAA
45521554 TAAATAAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
20 5 0.26
21 6 0.32
22 8 0.42
ACGTcount: A:0.40, C:0.02, G:0.05, T:0.53
Consensus pattern (21 bp):
ATTTTTAATTATTATCTGAAA
Found at i:45529440 original size:39 final size:39
Alignment explanation
Indices: 45529396--45529472 Score: 145
Period size: 39 Copynumber: 2.0 Consensus size: 39
45529386 ATTGATAGCT
45529396 TGCCCCAAAGTATCAATACCATAGCTTGGTGTCTATACA
1 TGCCCCAAAGTATCAATACCATAGCTTGGTGTCTATACA
*
45529435 TGCCCCAAAGTATCAATACCATATCTTGGTGTCTATAC
1 TGCCCCAAAGTATCAATACCATAGCTTGGTGTCTATAC
45529473 CATATTGTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.30, C:0.26, G:0.14, T:0.30
Consensus pattern (39 bp):
TGCCCCAAAGTATCAATACCATAGCTTGGTGTCTATACA
Found at i:45532896 original size:18 final size:18
Alignment explanation
Indices: 45532869--45532903 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
45532859 CTAATTTTTT
45532869 TTTACATTATAT-TATTA
1 TTTACATTATATATATTA
45532886 TTTATCATTATATATATT
1 TTTA-CATTATATATATT
45532904 TGTTGTGTTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 4 0.25
18 8 0.50
19 4 0.25
ACGTcount: A:0.34, C:0.06, G:0.00, T:0.60
Consensus pattern (18 bp):
TTTACATTATATATATTA
Found at i:45539470 original size:21 final size:21
Alignment explanation
Indices: 45539426--45539470 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
45539416 TTTAATAAAA
*
45539426 TTTTATAACTTTTTTATTAGT
1 TTTTATAACTTTTTTATCAGT
*
45539447 TTTTATAGATTTTTTTATCA-T
1 TTTTATA-ACTTTTTTATCAGT
45539468 TTT
1 TTT
45539471 AATTATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
21 11 0.52
22 10 0.48
ACGTcount: A:0.22, C:0.04, G:0.04, T:0.69
Consensus pattern (21 bp):
TTTTATAACTTTTTTATCAGT
Found at i:45539793 original size:2 final size:2
Alignment explanation
Indices: 45539786--45539813 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
45539776 TAAATTATTA
45539786 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
45539814 GTGTGTGTGT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:45547511 original size:41 final size:41
Alignment explanation
Indices: 45547424--45547528 Score: 122
Period size: 41 Copynumber: 2.6 Consensus size: 41
45547414 TTAATATGAA
* * * **
45547424 ACACCGGCAATAAGTCTGCTAGGCGTAAAGGCTGTAATGGT
1 ACACCGGCATTAAGCCTGCTAGGCGTAAAGCCTGTAATAAT
*
45547465 ACACCGGCATTAAGCCTGCTAGGCGTATAGCCTG-ATATAAT
1 ACACCGGCATTAAGCCTGCTAGGCGTAAAGCCTGTA-ATAAT
* *
45547506 TCACCGGCATAAAGCCTGCTAGG
1 ACACCGGCATTAAGCCTGCTAGG
45547529 AAGAAAGCCC
Statistics
Matches: 55, Mismatches: 8, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
40 1 0.02
41 54 0.98
ACGTcount: A:0.29, C:0.24, G:0.26, T:0.22
Consensus pattern (41 bp):
ACACCGGCATTAAGCCTGCTAGGCGTAAAGCCTGTAATAAT
Found at i:45552513 original size:14 final size:15
Alignment explanation
Indices: 45552494--45552531 Score: 51
Period size: 14 Copynumber: 2.6 Consensus size: 15
45552484 AATAAATTAT
45552494 TTAATATTTCAAT-A
1 TTAATATTTCAATAA
*
45552508 TTAATATTTTAATAA
1 TTAATATTTCAATAA
*
45552523 TAAATATTT
1 TTAATATTT
45552532 ATTACAATTA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 12 0.57
15 9 0.43
ACGTcount: A:0.45, C:0.03, G:0.00, T:0.53
Consensus pattern (15 bp):
TTAATATTTCAATAA
Found at i:45552958 original size:27 final size:26
Alignment explanation
Indices: 45552922--45552972 Score: 68
Period size: 27 Copynumber: 1.9 Consensus size: 26
45552912 TACAATAACT
45552922 TATGACATATTTAAATCTAGTATAAAAA
1 TATGACATATTTAAAT-TA-TATAAAAA
*
45552950 TATGA-ATATTTTAATTATATAAA
1 TATGACATATTTAAATTATATAAA
45552973 GATGAGTGTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
25 6 0.27
26 2 0.09
27 9 0.41
28 5 0.23
ACGTcount: A:0.49, C:0.04, G:0.06, T:0.41
Consensus pattern (26 bp):
TATGACATATTTAAATTATATAAAAA
Found at i:45558672 original size:28 final size:28
Alignment explanation
Indices: 45558640--45558711 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
45558630 ATGAGATTAA
* * *
45558640 CACTAATTGTGCGAGTTTAATTG-AAATG
1 CACTAACTGTGCGAGTATAATGGTAAA-G
*
45558668 CACTAAGTGTGCGAGTATAATGGTAAAG
1 CACTAACTGTGCGAGTATAATGGTAAAG
45558696 CACTAACTGTGCGAGT
1 CACTAACTGTGCGAGT
45558712 GTGATTATTA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 36 0.92
29 3 0.08
ACGTcount: A:0.32, C:0.14, G:0.25, T:0.29
Consensus pattern (28 bp):
CACTAACTGTGCGAGTATAATGGTAAAG
Found at i:45563327 original size:2 final size:2
Alignment explanation
Indices: 45563315--45563380 Score: 109
Period size: 2 Copynumber: 34.0 Consensus size: 2
45563305 TACATTTCGA
*
45563315 AT AT AT A- AT AT AT AT AT AT A- AT GT 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
45563355 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
45563381 CAAATGCATA
Statistics
Matches: 60, Mismatches: 2, Indels: 4
0.91 0.03 0.06
Matches are distributed among these distances:
1 2 0.03
2 58 0.97
ACGTcount: A:0.50, C:0.00, G:0.02, T:0.48
Consensus pattern (2 bp):
AT
Found at i:45563718 original size:2 final size:2
Alignment explanation
Indices: 45563676--45563710 Score: 52
Period size: 2 Copynumber: 17.5 Consensus size: 2
45563666 GTTCAAAAAC
* *
45563676 AT AT AT AT AT AT AA AT AT AT AT AT AT AT TT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
45563711 CTTATATACC
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:45566422 original size:41 final size:41
Alignment explanation
Indices: 45566377--45566521 Score: 218
Period size: 41 Copynumber: 3.5 Consensus size: 41
45566367 GACTTTAAGT
45566377 CTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAAC
* *
45566418 CTAGCAGGCTATGTGCCGGTGATATGAACCAGGTTATAAAC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAAC
* * * **
45566459 CTAGCAGGCTATGTGCCGGTGATCTGAATCAGGCTATATTC
1 CTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAAC
*
45566500 CTAGCAGGCTAAGTGCGGGTGA
1 CTAGCAGGCTAAGTGCCGGTGA
45566522 ATACGTTAAT
Statistics
Matches: 95, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 95 1.00
ACGTcount: A:0.26, C:0.21, G:0.29, T:0.24
Consensus pattern (41 bp):
CTAGCAGGCTAAGTGCCGGTGATCTGAACCAGGTTATAAAC
Found at i:45566596 original size:2 final size:2
Alignment explanation
Indices: 45566553--45566577 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
45566543 CAGGCATTTG
45566553 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 A
45566578 AATGATTTTG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:45570574 original size:15 final size:15
Alignment explanation
Indices: 45570554--45570582 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
45570544 CAATTGTGAA
45570554 TTCCAGTTAATTCCT
1 TTCCAGTTAATTCCT
45570569 TTCCAGTTAATTCC
1 TTCCAGTTAATTCC
45570583 AGTTAATACA
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:0.21, C:0.28, G:0.07, T:0.45
Consensus pattern (15 bp):
TTCCAGTTAATTCCT
Found at i:45572715 original size:27 final size:27
Alignment explanation
Indices: 45572677--45572733 Score: 105
Period size: 27 Copynumber: 2.1 Consensus size: 27
45572667 ACACAAAAAG
*
45572677 ATTACGTAGAAGATCAAGAATCTAAGT
1 ATTACATAGAAGATCAAGAATCTAAGT
45572704 ATTACATAGAAGATCAAGAATCTAAGT
1 ATTACATAGAAGATCAAGAATCTAAGT
45572731 ATT
1 ATT
45572734 CTTAGGTTAC
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
27 29 1.00
ACGTcount: A:0.46, C:0.11, G:0.16, T:0.28
Consensus pattern (27 bp):
ATTACATAGAAGATCAAGAATCTAAGT
Found at i:45574397 original size:13 final size:13
Alignment explanation
Indices: 45574379--45574403 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
45574369 CACTCTCCTC
45574379 ACCTTTCTGTCTT
1 ACCTTTCTGTCTT
45574392 ACCTTTCTGTCT
1 ACCTTTCTGTCT
45574404 CCACCGATTC
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:0.08, C:0.32, G:0.08, T:0.52
Consensus pattern (13 bp):
ACCTTTCTGTCTT
Found at i:45577661 original size:15 final size:15
Alignment explanation
Indices: 45577626--45577667 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
45577616 TTAAGAATTT
*
45577626 TATTAAATTAT-ATA
1 TATTTAATTATAATA
45577640 T-TTTAATTATAATA
1 TATTTAATTATAATA
*
45577654 TATTTAATAATAAT
1 TATTTAATTATAAT
45577668 TATGTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 8 0.33
14 5 0.21
15 11 0.46
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (15 bp):
TATTTAATTATAATA
Found at i:45581647 original size:11 final size:11
Alignment explanation
Indices: 45581631--45581672 Score: 75
Period size: 11 Copynumber: 3.8 Consensus size: 11
45581621 CCTTCAAAAA
45581631 TTCTCTTAAGT
1 TTCTCTTAAGT
45581642 TTCTCTTAAGT
1 TTCTCTTAAGT
*
45581653 TCCTCTTAAGT
1 TTCTCTTAAGT
45581664 TTCTCTTAA
1 TTCTCTTAA
45581673 CTCCCTTTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
11 29 1.00
ACGTcount: A:0.19, C:0.21, G:0.07, T:0.52
Consensus pattern (11 bp):
TTCTCTTAAGT
Found at i:45583498 original size:18 final size:18
Alignment explanation
Indices: 45583471--45583506 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
45583461 CAGGTGCGTT
*
45583471 TCCTAGCCCTTATATGTA
1 TCCTAACCCTTATATGTA
45583489 TCCTAACCCTTATATGTA
1 TCCTAACCCTTATATGTA
45583507 CCATTTTCCG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.25, C:0.28, G:0.08, T:0.39
Consensus pattern (18 bp):
TCCTAACCCTTATATGTA
Found at i:45584054 original size:23 final size:23
Alignment explanation
Indices: 45584028--45584214 Score: 179
Period size: 23 Copynumber: 8.2 Consensus size: 23
45584018 ATTAATACCC
45584028 TTAAATTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
**
45584051 TTAAATTAAAAACATTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
*
45584074 TTTAATTAAAAACCCTAAACCCT-A
1 TTAAATTAAAAACCCT-AA-CCTAA
* *
45584098 --AACTTAAAAACCCTAATCTAA
1 TTAAATTAAAAACCCTAACCTAA
*
45584119 TTTAATTAAAAACCCTAAACCCT-A
1 TTAAATTAAAAACCCT-AA-CCTAA
* ***
45584143 --AACTTAAAAACCCTAACCCCC
1 TTAAATTAAAAACCCTAACCTAA
*
45584164 TTAACTTAAAAACCCTAACCTAA
1 TTAAATTAAAAACCCTAACCTAA
*
45584187 TTAAATTAAAAACCCTAAACTAAA
1 TTAAATTAAAAACCCTAACCT-AA
45584211 TTAA
1 TTAA
45584215 TAATTTTACT
Statistics
Matches: 133, Mismatches: 20, Indels: 21
0.76 0.11 0.12
Matches are distributed among these distances:
20 4 0.03
21 5 0.04
22 24 0.18
23 83 0.62
24 12 0.09
25 5 0.04
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (23 bp):
TTAAATTAAAAACCCTAACCTAA
Found at i:45584120 original size:45 final size:45
Alignment explanation
Indices: 45584052--45584160 Score: 184
Period size: 45 Copynumber: 2.4 Consensus size: 45
45584042 CTAACCTAAT
**
45584052 TAAA-TTAAAAACATTAACCTAATTTAATTAAAAACCCTAAACCC
1 TAAACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCC
*
45584096 TAAACTTAAAAACCCTAATCTAATTTAATTAAAAACCCTAAACCC
1 TAAACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCC
45584141 TAAACTTAAAAACCCTAACC
1 TAAACTTAAAAACCCTAACC
45584161 CCCTTAACTT
Statistics
Matches: 60, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
44 4 0.07
45 56 0.93
ACGTcount: A:0.50, C:0.24, G:0.00, T:0.26
Consensus pattern (45 bp):
TAAACTTAAAAACCCTAACCTAATTTAATTAAAAACCCTAAACCC
Found at i:45584173 original size:45 final size:45
Alignment explanation
Indices: 45584075--45584181 Score: 162
Period size: 45 Copynumber: 2.4 Consensus size: 45
45584065 TTAACCTAAT
* *
45584075 TTAATTAAAAACCCTAAACCCTAAACTTAAAAACCCTAATCTAAT
1 TTAATTAAAAACCCTAAACCCTAAACTTAAAAACCCTAATCCAAC
**
45584120 TTAATTAAAAACCCTAAACCCTAAACTTAAAAACCCTAA-CCCCC
1 TTAATTAAAAACCCTAAACCCTAAACTTAAAAACCCTAATCCAAC
45584164 TTAACTTAAAAACCCTAA
1 TTAA-TTAAAAACCCTAA
45584182 CCTAATTAAA
Statistics
Matches: 57, Mismatches: 4, Indels: 2
0.90 0.06 0.03
Matches are distributed among these distances:
44 5 0.09
45 52 0.91
ACGTcount: A:0.48, C:0.28, G:0.00, T:0.24
Consensus pattern (45 bp):
TTAATTAAAAACCCTAAACCCTAAACTTAAAAACCCTAATCCAAC
Found at i:45584200 original size:68 final size:68
Alignment explanation
Indices: 45584024--45584206 Score: 246
Period size: 68 Copynumber: 2.7 Consensus size: 68
45584014 AACCATTAAT
* * *
45584024 ACCCTTAAATTAAAAACCCTAACCTAATTAAATTAAAAA-CATTAA-CCTAATTTAATTAAAAAC
1 ACCCTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACCCTAA--TAATTAAAAAC
45584087 CCTAA
64 CCTAA
* * * *
45584092 ACCCTAAACTTAAAAACCCTAATCTAATTTAATTAAAAACCCTAAACCCTAA-ACTTAAAAACCC
1 ACCCTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACCCTAATAATTAAAAACCC
45584156 TAA
66 TAA
*
45584159 CCCCCTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAAC
1 -ACCCTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAAC
45584207 TAAATTAATA
Statistics
Matches: 101, Mismatches: 11, Indels: 6
0.86 0.09 0.05
Matches are distributed among these distances:
67 14 0.14
68 78 0.77
69 4 0.04
70 5 0.05
ACGTcount: A:0.49, C:0.26, G:0.00, T:0.25
Consensus pattern (68 bp):
ACCCTTAACTTAAAAACCCTAACCTAATTAAATTAAAAACCCTAAACCCTAATAATTAAAAACCC
TAA
Found at i:45591577 original size:17 final size:17
Alignment explanation
Indices: 45591555--45591589 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
45591545 CGTGCGTCTA
45591555 TTTC-TTCTTTCTCTTTC
1 TTTCTTTCTTT-TCTTTC
45591572 TTTCTTTCTTTTCTTTC
1 TTTCTTTCTTTTCTTTC
45591589 T
1 T
45591590 AATGTTTTTT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 11 0.65
18 6 0.35
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (17 bp):
TTTCTTTCTTTTCTTTC
Found at i:45591587 original size:13 final size:14
Alignment explanation
Indices: 45591555--45591589 Score: 56
Period size: 13 Copynumber: 2.6 Consensus size: 14
45591545 CGTGCGTCTA
45591555 TTTC-TTCTTTCTC
1 TTTCTTTCTTTCTC
45591568 TTTCTTTCTTTCT-
1 TTTCTTTCTTTCTC
45591581 TTTCTTTCT
1 TTTCTTTCT
45591590 AATGTTTTTT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 13 0.62
14 8 0.38
ACGTcount: A:0.00, C:0.26, G:0.00, T:0.74
Consensus pattern (14 bp):
TTTCTTTCTTTCTC
Found at i:45591618 original size:2 final size:2
Alignment explanation
Indices: 45591603--45591639 Score: 58
Period size: 2 Copynumber: 19.0 Consensus size: 2
45591593 GTTTTTTTAT
*
45591603 TA TA AA TA TA -A 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
45591640 CTTCACAATT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
1 1 0.03
2 31 0.97
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (2 bp):
TA
Found at i:45594641 original size:3 final size:3
Alignment explanation
Indices: 45594633--45594657 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
45594623 ATTAGGAACC
45594633 CAT CAT CAT CAT CAT CAT CAT CAT C
1 CAT CAT CAT CAT CAT CAT CAT CAT C
45594658 CACTGGAGCA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.36, G:0.00, T:0.32
Consensus pattern (3 bp):
CAT
Found at i:45599993 original size:19 final size:19
Alignment explanation
Indices: 45599971--45600008 Score: 51
Period size: 19 Copynumber: 2.0 Consensus size: 19
45599961 CGTAAACAAC
45599971 AATTCTATACTTTAT-TAGT
1 AATTCTA-ACTTTATGTAGT
*
45599990 AATTTTAACTTTATGTAGT
1 AATTCTAACTTTATGTAGT
45600009 GGAGTGTATT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.32, C:0.08, G:0.08, T:0.53
Consensus pattern (19 bp):
AATTCTAACTTTATGTAGT
Found at i:45602037 original size:39 final size:38
Alignment explanation
Indices: 45601989--45602067 Score: 95
Period size: 38 Copynumber: 2.1 Consensus size: 38
45601979 ACATATACAT
* *
45601989 GGTTGCAAACAAATTCACAAAACATAAGAGGTTCGCAGA
1 GGTTACAAACAAA-TCACAAAACACAAGAGGTTCGCAGA
* * * *
45602028 GGTTACAAACATATCACATAAGACAAGAGGTTTGCAGA
1 GGTTACAAACAAATCACAAAACACAAGAGGTTCGCAGA
45602066 GG
1 GG
45602068 CGTTCGTAAA
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
38 23 0.68
39 11 0.32
ACGTcount: A:0.42, C:0.16, G:0.23, T:0.19
Consensus pattern (38 bp):
GGTTACAAACAAATCACAAAACACAAGAGGTTCGCAGA
Found at i:45607792 original size:28 final size:28
Alignment explanation
Indices: 45607768--45607822 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
45607758 AATAAATATA
45607768 TATTTTATTTAAATATTTTTAAAATAAT
1 TATTTTATTTAAATATTTTTAAAATAAT
* ***
45607796 TTTTTTATTTTTTTATTTTTAAAATAA
1 TATTTTATTTAAATATTTTTAAAATAA
45607823 ATTTTTGGTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (28 bp):
TATTTTATTTAAATATTTTTAAAATAAT
Found at i:45608040 original size:41 final size:41
Alignment explanation
Indices: 45607995--45608113 Score: 177
Period size: 41 Copynumber: 2.9 Consensus size: 41
45607985 CCCGATTCAG
45607995 TTCACCGGCATAAAGCCTGCTAGACATAAAGTCTGAAATAA
1 TTCACCGGCATAAAGCCTGCTAGACATAAAGTCTGAAATAA
45608036 TTCACCGGCATTAAA-CCTGCTAGACATAAAGTCTGAAATAA
1 TTCACCGGCA-TAAAGCCTGCTAGACATAAAGTCTGAAATAA
* * * * *
45608077 TTCACCGACATTAAGCCTGCTAGGCATTAAGCCTGAA
1 TTCACCGGCATAAAGCCTGCTAGACATAAAGTCTGAA
45608114 TATCACAGAT
Statistics
Matches: 71, Mismatches: 5, Indels: 4
0.89 0.06 0.05
Matches are distributed among these distances:
40 3 0.04
41 64 0.90
42 4 0.06
ACGTcount: A:0.36, C:0.24, G:0.17, T:0.24
Consensus pattern (41 bp):
TTCACCGGCATAAAGCCTGCTAGACATAAAGTCTGAAATAA
Found at i:45608477 original size:2 final size:2
Alignment explanation
Indices: 45608470--45608515 Score: 69
Period size: 2 Copynumber: 24.0 Consensus size: 2
45608460 TATAGAATAC
*
45608470 AT AT AT AT AT AT AT AT AT -T A- AT AT AT AT AT AT AT AC AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
45608510 AT AT AT
1 AT AT AT
45608516 TAATTTATTA
Statistics
Matches: 40, Mismatches: 2, Indels: 4
0.87 0.04 0.09
Matches are distributed among these distances:
1 2 0.05
2 38 0.95
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:45608971 original size:14 final size:14
Alignment explanation
Indices: 45608952--45608997 Score: 83
Period size: 14 Copynumber: 3.3 Consensus size: 14
45608942 TTAAAAAATG
45608952 TTATTAAATTATTA
1 TTATTAAATTATTA
*
45608966 TTATTAAATTAGTA
1 TTATTAAATTATTA
45608980 TTATTAAATTATTA
1 TTATTAAATTATTA
45608994 TTAT
1 TTAT
45608998 ATTTTAAATA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 30 1.00
ACGTcount: A:0.41, C:0.00, G:0.02, T:0.57
Consensus pattern (14 bp):
TTATTAAATTATTA
Found at i:45609119 original size:3 final size:3
Alignment explanation
Indices: 45609113--45609165 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
45609103 AATATTAAAA
45609113 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT
45609161 TAT TA
1 TAT TA
45609166 ACTAGGAATA
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:45610358 original size:23 final size:22
Alignment explanation
Indices: 45610331--45610415 Score: 95
Period size: 21 Copynumber: 4.0 Consensus size: 22
45610321 GGCTTTGCCG
* *
45610331 ATCAGGCACTTTATGTGTCGTAT
1 ATCAGGCACCTCATGTGTCGT-T
*
45610354 ATCAGGCACCTCGTGTGTCG-T
1 ATCAGGCACCTCATGTGTCGTT
*
45610375 ATCAGGCACCTCGTGTGTCGTT
1 ATCAGGCACCTCATGTGTCGTT
*
45610397 -TCAGGCA-CTTATGTGTCGT
1 ATCAGGCACCTCATGTGTCGT
45610416 ATACTGATCA
Statistics
Matches: 56, Mismatches: 5, Indels: 5
0.85 0.08 0.08
Matches are distributed among these distances:
20 10 0.18
21 28 0.50
22 1 0.02
23 17 0.30
ACGTcount: A:0.16, C:0.24, G:0.26, T:0.34
Consensus pattern (22 bp):
ATCAGGCACCTCATGTGTCGTT
Found at i:45610377 original size:21 final size:21
Alignment explanation
Indices: 45610344--45610417 Score: 96
Period size: 21 Copynumber: 3.5 Consensus size: 21
45610334 AGGCACTTTA
45610344 TGTGTCGTATATCAGGCACCTCG
1 TGTGTCG--TATCAGGCACCTCG
45610367 TGTGTCGTATCAGGCACCTCG
1 TGTGTCGTATCAGGCACCTCG
* **
45610388 TGTGTCGTTTCAGGCA-CTTA
1 TGTGTCGTATCAGGCACCTCG
45610408 TGTGTCGTAT
1 TGTGTCGTAT
45610418 ACTGATCAGG
Statistics
Matches: 47, Mismatches: 4, Indels: 3
0.87 0.07 0.06
Matches are distributed among these distances:
20 11 0.23
21 29 0.62
23 7 0.15
ACGTcount: A:0.15, C:0.23, G:0.27, T:0.35
Consensus pattern (21 bp):
TGTGTCGTATCAGGCACCTCG
Found at i:45614072 original size:75 final size:75
Alignment explanation
Indices: 45613821--45615123 Score: 1613
Period size: 75 Copynumber: 17.1 Consensus size: 75
45613811 TTTCTTTTTA
* * * *
45613821 TGTTTTTCAAAAATTAACTCATAATTCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTAT
1 TGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTAT
45613886 TTTTCAATTTC
66 TTTT-AATTTC
* * * * *
45613897 TGTTTTTTAAAAATCAACTCATAAGCCGAGAGGTGGGTTGAGCCTCGGGTCACACGCCGAGGTAT
1 TGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTAT
*
45613962 TTTCCAATTTC
66 TTT-TAATTTC
* * * * *
45613973 TATTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAACCTCAGGTTGCACACTGAGGTAT
1 TGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTAT
45614038 TTTTAATTTC
66 TTTTAATTTC
* * * *
45614048 TGTTTTGCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGAGTCACACGCCGAGGTAT
1 TGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTA-
45614113 TTTTTAATTTC
65 TTTTTAATTTC
* * * * * *
45614124 TATATTTCAAAAATCAACTCATAATCCGATATGTGAGTTGAGCCTCGGCTCACACGCTGAGGTAT
1 TGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTAT
*
45614189 TTTCAATTTC
66 TTTTAATTTC
* *
45614199 TGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCTTCGGGTCGCACTCTGAGGTAT
1 TGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTAT
*
45614264 TTTTCAATTTT
66 TTTT-AATTTC
**
45614275 TGTTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTTACACGCTGAGGTA
1 TG-TTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTA
*
45614340 TTTTTCAATTCCTA
65 TTTTT-AATT--TC
* * * * * * **
45614354 TTTTTTTCAAAGATCAACTCATAATTCGAGAAGTGAGTTGAGCCTCGGGTTGCACGTTGACATAT
1 TGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTAT
*
45614419 TTTCAATTTC
66 TTTTAATTTC
* * * * * *
45614429 TATTTTTTAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTTAGATAT
1 TGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTAT
*
45614494 TTTCAATTTC
66 TTTTAATTTC
* * * * *
45614504 TATTTTTCAAAAATCAACTTATAATTCGATAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTAT
1 TGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTAT
*
45614569 TTTCAATTTC
66 TTTTAATTTC
* * * *
45614579 TATTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCTTTGGGTCGCACGAC-AAGGTA
1 TGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACG-CTGAGGTA
45614643 TTTTTCAATTTC
65 TTTTT-AATTTC
* * * *
45614655 TGTTTTTTCAAAAATCAACTCATAATCTGAAAGGTGAGTTGAGCCTCAGGTCACACGCTGAGGTA
1 TG-TTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTA
45614720 TTTTTCAATTTC
65 TTTTT-AATTTC
* * *
45614732 TGTTTTTCAAAAATCAACTCATAATCTGAGAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGTAT
1 TGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTAT
*
45614797 TTTCAATTTC
66 TTTTAATTTC
* * *
45614807 TGTTTTTCAAAAATCAACTAATAATCCGAGAGGTGAGTTGAGCTTCGGGTCGCACGCCGAGGTAT
1 TGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTA-
45614872 TTTTTAATTTC
65 TTTTTAATTTC
* * * * *
45614883 TGTTTTTTCAAAGATCAACTCATAGTCTGAGAGGTGAGTTGAGCCTCGAGTCGCACGCCGAGGTA
1 TG-TTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTA
45614948 TTTTTCAATTTC
65 TTTTT-AATTTC
* * * * *
45614960 TGTTTTTTTTCAAAGATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCAGGTTGCACGCTGACG
1 TG---TTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGG
* *
45615025 TATTATCAATTTC
63 TATTTTTAATTTC
* * * * * *
45615038 TATTTTTCAAAGATCAACTCATAAGCCGAGAGGTGAGTTGAGCTTCAGGTCGCACG-TCGAGCTA
1 TGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCT-GAGGTA
*
45615102 -TTTTAGATTTT
65 TTTTTA-ATTTC
45615113 TGTTTTTCAAA
1 TGTTTTTCAAA
45615124 TAAAAAAATA
Statistics
Matches: 1080, Mismatches: 130, Indels: 35
0.87 0.10 0.03
Matches are distributed among these distances:
74 4 0.00
75 457 0.42
76 290 0.27
77 203 0.19
78 66 0.06
79 60 0.06
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.34
Consensus pattern (75 bp):
TGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCACGCTGAGGTAT
TTTTAATTTC
Found at i:45614522 original size:228 final size:226
Alignment explanation
Indices: 45613821--45615119 Score: 1722
Period size: 228 Copynumber: 5.7 Consensus size: 226
45613811 TTTCTTTTTA
* * *
45613821 TGTTTTTCAAAAATTAACTCATAATTCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTAT
1 TGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTA-
* * * * *
45613886 TTTTCAATTTCTGTTTTTTAAAAATCAACTCATAAGCCGAGAGGTGGGTTGAGCCTCGGGTCACA
65 TTTTCAATTTCTATTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCA
* * *
45613951 CGCCGAGGTATTTTCCAATTTCTATTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAAC
130 CGCCGAGGTATTTT-CAATTTCTGTTTTTTAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGC
* * *
45614016 CTCAGGTTGCACACTGAGGTATTTTT-AATTTC
194 CTCGGGTCGCACGCTGAGGTATTTTTCAATTTC
* * *
45614048 TGTTTTGCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGAGTCACACGCCGAGGTAT
1 TGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTA-
* * * * * *
45614113 TTTTTAATTTCTATATTTCAAAAATCAACTCATAATCCGATATGTGAGTTGAGCCTCGGCTCACA
65 TTTTCAATTTCTATTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCA
* * *
45614178 CGCTGAGGTATTTTCAATTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCT
130 CGCCGAGGTATTTTCAATTTCTGTTTTTTAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCC
* *
45614243 TCGGGTCGCACTCTGAGGTATTTTTCAATTTT
195 TCGGGTCGCACGCTGAGGTATTTTTCAATTTC
*
45614275 TGTTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTTACACGCTGAGGTA
1 TG-TTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTA
* * * * *
45614340 TTTTTCAATTCCTATTTTTTTCAAAGATCAACTCATAATTCGAGAAGTGAGTTGAGCCTCGGGTT
65 -TTTTCAATTTCTA--TTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTC
** ** * *
45614405 GCACGTTGACATATTTTCAATTTCTATTTTTTAAAGATCAACTCATAATCCGAGAGGTGAGTTGA
127 GCACGCCGAGGTATTTTCAATTTCTGTTTTTTAAAAATCAACTCATAATCCGAGAGGTGAGTTGA
* * *
45614470 GCCTCGGGTCACACGCTTAGATA-TTTTCAATTTC
192 GCCTCGGGTCGCACGCTGAGGTATTTTTCAATTTC
* * * *
45614504 TATTTTTCAAAAATCAACTTATAATTCGATAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTAT
1 TGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTAT
* *
45614569 TTTCAATTTCTATTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCTTTGGGTCGCAC
66 TTTCAATTTCTATTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCAC
* * * *
45614634 GACAAGGTATTTTTCAATTTCTGTTTTTTCAAAAATCAACTCATAATCTGAAAGGTGAGTTGAGC
131 GCCGAGGTA-TTTTCAATTTCTGTTTTTT-AAAAATCAACTCATAATCCGAGAGGTGAGTTGAGC
* *
45614699 CTCAGGTCACACGCTGAGGTATTTTTCAATTTC
194 CTCGGGTCGCACGCTGAGGTATTTTTCAATTTC
* *
45614732 TGTTTTTCAAAAATCAACTCATAATCTGAGAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGTAT
1 TGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTAT
* * *
45614797 TTTCAATTTCTGTTTTTCAAAAATCAACTAATAATCCGAGAGGTGAGTTGAGCTTCGGGTCGCAC
66 TTTCAATTTCTATTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCAC
* * * *
45614862 GCCGAGGTATTTTTTAATTTCTGTTTTTTCAAAGATCAACTCATAGTCTGAGAGGTGAGTTGAGC
131 GCCGAGGTA-TTTTCAATTTCTGTTTTTT-AAAAATCAACTCATAATCCGAGAGGTGAGTTGAGC
* *
45614927 CTCGAGTCGCACGCCGAGGTATTTTTCAATTTC
194 CTCGGGTCGCACGCTGAGGTATTTTTCAATTTC
* * * ** *
45614960 TGTTTTTTTTCAAAGATCAACTCATAATCCGAGAAGTGAGTTGAGCCTCAGGTTGCACGCTGACG
1 TG---TTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGG
* * * * *
45615025 TATTATCAATTTCTATTTTTCAAAGATCAACTCATAAGCCGAGAGGTGAGTTGAGCTTCAGGTCG
63 TATTTTCAATTTCTATTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCG
* * *
45615090 CACGTCGAGCTATTTT-AGATTTTTGTTTTT
128 CACGCCGAGGTATTTTCA-ATTTCTGTTTTT
45615120 CAAATAAAAA
Statistics
Matches: 954, Mismatches: 107, Indels: 19
0.88 0.10 0.02
Matches are distributed among these distances:
225 51 0.05
226 88 0.09
227 199 0.21
228 350 0.37
229 12 0.01
230 133 0.14
231 121 0.13
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.35
Consensus pattern (226 bp):
TGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTAT
TTTCAATTTCTATTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCGCAC
GCCGAGGTATTTTCAATTTCTGTTTTTTAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCT
CGGGTCGCACGCTGAGGTATTTTTCAATTTC
Found at i:45614765 original size:303 final size:305
Alignment explanation
Indices: 45613823--45615123 Score: 1755
Period size: 303 Copynumber: 4.3 Consensus size: 305
45613813 TCTTTTTATG
* * *
45613823 TTTTTCAAAAATTAACTCATAATTCGAGAGGTGAGTTGAGCCTCGGGTCACACGCCGAGGTATTT
1 TTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTA-TT
* * *
45613888 TTCAATTTCTGTTTTTTAAAAATCAACTCATAAGCCGAGAGGTGGGTTGAGCCTCGGGTCACACG
65 TTCAATTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACG
* *
45613953 CCGAGGTATTTTCCAATTTCT-ATTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAACC
130 CCGAGGTATTTTTCAATTTCTGATTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCC
* * *
45614017 TCAGGTTGCAC-ACTGAGGTATTTTT-AATTTCTG-TTTTGCAAAAATCAACTCATAATCCGAGA
195 TCGGGTCGCACGACTGAGGTATTTTTCAATTTCTGTTTTTTCAAAAATCAACTCATAATCCGAGA
* * * *
45614079 GGTGAGTTGAGCCTC-GAGTCACACGCCGAGGTATTTTTTAATTTCTA
260 AGTGAGTTGAGCCTCAG-GTCACACGCTGACGTA-TTTTCAATTTCTA
* * * *
45614126 TATTTCAAAAATCAACTCATAATCCGATATGTGAGTTGAGCCTCGGCTCACACGCTGAGGTATTT
1 TTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTT
* * *
45614191 TCAATTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCTTCGGGTCGCACTC
66 TCAATTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGC
* * *
45614256 TGAGGTATTTTTCAATTTTTGTTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCT
131 CGAGGTATTTTTCAATTTCTGATTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCT
** * * * *
45614321 CGGGTTACACG-CTGAGGTATTTTTCAATTCCTATTTTTTTCAAAGATCAACTCATAATTCGAGA
196 CGGGTCGCACGACTGAGGTATTTTTCAATTTCT-GTTTTTTCAAAAATCAACTCATAATCCGAGA
* ** * *
45614385 AGTGAGTTGAGCCTCGGGTTGCACGTTGACATATTTTCAATTTCTA
260 AGTGAGTTGAGCCTCAGGTCACACGCTGACGTATTTTCAATTTCTA
* * * *
45614431 TTTTTTAAAGATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTTAGATATTT
1 TTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTT
* * * *
45614496 TCAATTTCTATTTTTCAAAAATCAACTTATAATTCGATAGGTGAGTTGAGCCTCGGGTCACACGC
66 TCAATTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGC
* *
45614561 TGAGGTA-TTTTCAATTTCT-ATTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCTT
131 CGAGGTATTTTTCAATTTCTGATTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCT
* * *
45614624 TGGGTCGCACGAC-AAGGTATTTTTCAATTTCTGTTTTTTCAAAAATCAACTCATAATCTGA-AA
196 CGGGTCGCACGACTGAGGTATTTTTCAATTTCTGTTTTTTCAAAAATCAACTCATAATCCGAGAA
* *
45614687 GGTGAGTTGAGCCTCAGGTCACACGCTGAGGTATTTTTCAATTTCTG
261 -GTGAGTTGAGCCTCAGGTCACACGCTGACGTA-TTTTCAATTTCTA
* *
45614734 TTTTTCAAAAATCAACTCATAATCTGAGAGGTGAGTTGAGCCTCGGGTCACATGCTGAGGTATTT
1 TTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTT
* * *
45614799 TCAATTTCTGTTTTTCAAAAATCAACTAATAATCCGAGAGGTGAGTTGAGCTTCGGGTCGCACGC
66 TCAATTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGC
* * * * *
45614864 CGAGGTATTTTTTAATTTCTGTTTTTTCAAAGATCAACTCATAGTCTGAGAGGTGAGTTGAGCCT
131 CGAGGTATTTTTCAATTTCTGATTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCT
* * *
45614929 CGAGTCGCACG-CCGAGGTATTTTTCAATTTCTGTTTTTTTTCAAAGATCAACTCATAATCCGAG
196 CGGGTCGCACGACTGAGGTATTTTTCAATTTCTG--TTTTTTCAAAAATCAACTCATAATCCGAG
** *
45614993 AAGTGAGTTGAGCCTCAGGTTGCACGCTGACGTATTATCAATTTCTA
259 AAGTGAGTTGAGCCTCAGGTCACACGCTGACGTATTTTCAATTTCTA
* * * * * *
45615040 TTTTTCAAAGATCAACTCATAAGCCGAGAGGTGAGTTGAGCTTCAGGTCGCACG-TCGAGCTATT
1 TTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCT-GAGGTATT
*
45615104 TT-AGATTTTTGTTTTTCAAA
65 TTCA-ATTTCTGTTTTTCAAA
45615124 TAAAAAAATA
Statistics
Matches: 876, Mismatches: 105, Indels: 31
0.87 0.10 0.03
Matches are distributed among these distances:
301 2 0.00
302 130 0.15
303 321 0.37
304 30 0.03
305 203 0.23
306 132 0.15
307 56 0.06
308 2 0.00
ACGTcount: A:0.27, C:0.18, G:0.20, T:0.34
Consensus pattern (305 bp):
TTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGCTGAGGTATTT
TCAATTTCTGTTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCTCGGGTCACACGC
CGAGGTATTTTTCAATTTCTGATTTTTCAAAAATCAACTCATAATCCGAGAGGTGAGTTGAGCCT
CGGGTCGCACGACTGAGGTATTTTTCAATTTCTGTTTTTTCAAAAATCAACTCATAATCCGAGAA
GTGAGTTGAGCCTCAGGTCACACGCTGACGTATTTTCAATTTCTA
Found at i:45616032 original size:16 final size:15
Alignment explanation
Indices: 45616011--45616066 Score: 58
Period size: 16 Copynumber: 3.5 Consensus size: 15
45616001 GCTAGGGCCG
45616011 AGAGAAGGAAAACAGA
1 AGAGAAGGAAAA-AGA
45616027 AGAGAAGAGAAAAAGA
1 AGAGAAG-GAAAAAGA
* * *
45616043 AAAGAAGAAAAAAAA
1 AGAGAAGGAAAAAGA
45616058 AGAAGAAGG
1 AG-AGAAGG
45616067 CCCATTCTTC
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
15 7 0.21
16 21 0.64
17 5 0.15
ACGTcount: A:0.70, C:0.02, G:0.29, T:0.00
Consensus pattern (15 bp):
AGAGAAGGAAAAAGA
Found at i:45616061 original size:13 final size:14
Alignment explanation
Indices: 45616034--45616064 Score: 55
Period size: 13 Copynumber: 2.3 Consensus size: 14
45616024 AGAAGAGAAG
45616034 AGAAAAAGAAAAGA
1 AGAAAAAGAAAAGA
45616048 AGAAAAA-AAAAGA
1 AGAAAAAGAAAAGA
45616061 AGAA
1 AGAA
45616065 GGCCCATTCT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 10 0.59
14 7 0.41
ACGTcount: A:0.81, C:0.00, G:0.19, T:0.00
Consensus pattern (14 bp):
AGAAAAAGAAAAGA
Found at i:45622535 original size:3 final size:3
Alignment explanation
Indices: 45622527--45622579 Score: 106
Period size: 3 Copynumber: 17.7 Consensus size: 3
45622517 TATAAAAGTT
45622527 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
45622575 ATA AT
1 ATA AT
45622580 NNNNNNNNNN
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 50 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:45622691 original size:3 final size:3
Alignment explanation
Indices: 45622683--45622716 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
45622673 NNNNNNNATA
45622683 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
45622717 GAACTCATAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:45623734 original size:76 final size:76
Alignment explanation
Indices: 45623645--45623798 Score: 308
Period size: 76 Copynumber: 2.0 Consensus size: 76
45623635 CAGAATATTG
45623645 AAATTATCATTATTTTAATCATTAAACTACATGTTAAATCTTATATAACATAATTTAAAATTAAA
1 AAATTATCATTATTTTAATCATTAAACTACATGTTAAATCTTATATAACATAATTTAAAATTAAA
45623710 AGTTTAAAGAA
66 AGTTTAAAGAA
45623721 AAATTATCATTATTTTAATCATTAAACTACATGTTAAATCTTATATAACATAATTTAAAATTAAA
1 AAATTATCATTATTTTAATCATTAAACTACATGTTAAATCTTATATAACATAATTTAAAATTAAA
45623786 AGTTTAAAGAA
66 AGTTTAAAGAA
45623797 AA
1 AA
45623799 GTAGTATGTT
Statistics
Matches: 78, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 78 1.00
ACGTcount: A:0.49, C:0.08, G:0.04, T:0.39
Consensus pattern (76 bp):
AAATTATCATTATTTTAATCATTAAACTACATGTTAAATCTTATATAACATAATTTAAAATTAAA
AGTTTAAAGAA
Found at i:45624038 original size:58 final size:58
Alignment explanation
Indices: 45623973--45624088 Score: 232
Period size: 58 Copynumber: 2.0 Consensus size: 58
45623963 TGTCACATAG
45623973 AATTTAAGACATCATTTAACGGCTAAATTAATGGTTTTAGTAACGAAAGGATTTTATT
1 AATTTAAGACATCATTTAACGGCTAAATTAATGGTTTTAGTAACGAAAGGATTTTATT
45624031 AATTTAAGACATCATTTAACGGCTAAATTAATGGTTTTAGTAACGAAAGGATTTTATT
1 AATTTAAGACATCATTTAACGGCTAAATTAATGGTTTTAGTAACGAAAGGATTTTATT
45624089 GATATAATAT
Statistics
Matches: 58, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.38
Consensus pattern (58 bp):
AATTTAAGACATCATTTAACGGCTAAATTAATGGTTTTAGTAACGAAAGGATTTTATT
Found at i:45630113 original size:126 final size:125
Alignment explanation
Indices: 45629698--45630266 Score: 748
Period size: 126 Copynumber: 4.5 Consensus size: 125
45629688 GATAAAATCA
* * * * * * * * *
45629698 AAGCAGAATGATTTATCAGAAGGATTTTTGAAGTCACGCCCACGTGTACGTGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* *
45629763 AGGTCCTAGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTTTAACAAACGCTTC
66 AGGTCCTAGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
* *
45629823 AAGCAGGATACTTTATGAGAAGAATTTGTGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * * * * * *
45629888 TGGTCCTGGAAGAAATAATTTCGAGTTGACATTTTTGAGTAAATAGTTTTAAAAAACGCTTC
66 AGGTCCTAGAA-AAATAATTTCGACTTGACGTTTCTGAGCAAATAG-TATAAAAAACGCTTC
* * *
45629950 AAGCAGGATGCTTTATAAGAAGAATTTGTGAAGTCGCGCCCACATGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
* * * *
45630015 AGGTCCT-GAAAAAATAATTTTGAGTTGACGTTTCTGAGCAAATAGTATAAAACAATGCTGC
66 AGGTCCTAG-AAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAA-AACGCTTC
* * * *
45630076 AAGAAGCATGCTATT-TGAGAAGAATTTATGAAATCGCGCCCTCGTGGACGCGCTTTTGCTACAG
1 AAGCAGGATGCT-TTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAG
* * *
45630140 TAGGTCCTAGAAAAATAATTTCGACTTGACGTTTCTGACCAAAAAGTAT-AAAATCGCTTC
65 TAGGTCCTAGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
* *
45630200 TAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGAGCCCACGTGGACGCGCTTTTGCTACAGT
1 AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
45630265 AG
66 AG
45630267 CATGTTTAGG
Statistics
Matches: 386, Mismatches: 51, Indels: 15
0.85 0.11 0.03
Matches are distributed among these distances:
123 2 0.01
124 63 0.16
125 72 0.19
126 164 0.42
127 85 0.22
ACGTcount: A:0.31, C:0.18, G:0.22, T:0.29
Consensus pattern (125 bp):
AAGCAGGATGCTTTATGAGAAGAATTTGTGAAATCGCGCCCACGTGGACGCGCTTTTGCTACAGT
AGGTCCTAGAAAAATAATTTCGACTTGACGTTTCTGAGCAAATAGTATAAAAAACGCTTC
Found at i:45633429 original size:22 final size:21
Alignment explanation
Indices: 45633385--45633775 Score: 433
Period size: 22 Copynumber: 18.1 Consensus size: 21
45633375 TCAAATTATA
45633385 TTTAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* *
45633406 TTTAATTTAAGGGTTTAGGATT
1 TTTAAGTTAAGGG-TTAGGGTT
* *
45633428 TTAAAGTTAATGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
**
45633449 TTTAAGTTAAGGGTTAGAATT
1 TTTAAGTTAAGGGTTAGGGTT
* *
45633470 TTTAGGTTAAGGGTTTAGGGGT
1 TTTAAGTTAAGGG-TTAGGGTT
* *
45633492 TTTAATTTAAGGGTTTATGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
* *
45633514 TTAAAATTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
* *
45633535 TTAAAGTTAAGGGTTTAGTGTT
1 TTTAAGTTAAGGG-TTAGGGTT
*
45633557 TTAAAGTTAAGGGGTTAGGGTT
1 TTTAAGTTAA-GGGTTAGGGTT
*
45633579 TTTAAGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
45633601 TTTAAGTTAAGGGGTTAGGGTT
1 TTTAAGTTAA-GGGTTAGGGTT
*
45633623 TTAAAGTTAAAGGGTTAGGGTT
1 TTTAAGTT-AAGGGTTAGGGTT
*
45633645 TTAAAGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
*
45633666 TTTAGGTTAAGGGTTTATGGG-T
1 TTTAAGTTAAGGG-TTA-GGGTT
* *
45633688 TTTAATTTAAGTGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
**
45633709 TTTGGGTTAAGGGTTAGGGTT
1 TTTAAGTTAAGGGTTAGGGTT
*
45633730 TTTAAGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
* *
45633752 TTTAGGTTAAGGGTTTAAGGTT
1 TTTAAGTTAAGGG-TTAGGGTT
45633774 TT
1 TT
45633776 GTCAATTAAA
Statistics
Matches: 318, Mismatches: 41, Indels: 21
0.84 0.11 0.06
Matches are distributed among these distances:
20 3 0.01
21 126 0.40
22 178 0.56
23 11 0.03
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (21 bp):
TTTAAGTTAAGGGTTAGGGTT
Found at i:45633445 original size:43 final size:42
Alignment explanation
Indices: 45633388--45633775 Score: 442
Period size: 43 Copynumber: 9.0 Consensus size: 42
45633378 AATTATATTT
*
45633388 AAGTTAAGGGTTAGGGTTTTTAATTTAAGGGTTTAGGATTTTA
1 AAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGG-TTTTA
* * *
45633431 AAGTTAATGGTTAGGGTTTTTAAGTTAAGGG-TTAGAATTTTT
1 AAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAG-GTTTTA
* * *
45633473 AGGTTAAGGGTTTAGGGGTTTTAATTTAAGGGTTTATGGTTTTA
1 AAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTTA-GGTTTTA
* *
45633517 AAATTAAGGGTTAGGGTTTTAAAGTTAAGGGTTTAGTGTTTTA
1 AAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAG-GTTTTA
*
45633560 AAGTTAAGGGGTTAGGGTTTTTAAGTTAAGGGTTTAAGGTTTTT
1 AAGTTAA-GGGTTAGGGTTTTTAAGTTAAGGGTTT-AGGTTTTA
*
45633604 AAGTTAAGGGGTTAGGGTTTTAAAGTTAAAGGG-TTAGGGTTTTA
1 AAGTTAA-GGGTTAGGGTTTTTAAGTT-AAGGGTTTA-GGTTTTA
*
45633648 AAGTTAAGGGTTAGGGTTTTTAGGTTAAGGGTTTATGGGTTTT-
1 AAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTA--GGTTTTA
* * ** *
45633691 AATTTAAGTGTTAGGGTTTTTGGGTTAAGGG-TTAGGGTTTTT
1 AAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTA-GGTTTTA
* *
45633733 AAGTTAAGGGTTTAAGGTTTTTAGGTTAAGGGTTTAAGGTTTT
1 AAGTTAAGGG-TTAGGGTTTTTAAGTTAAGGGTTT-AGGTTTT
45633776 GTCAATTAAA
Statistics
Matches: 301, Mismatches: 29, Indels: 29
0.84 0.08 0.08
Matches are distributed among these distances:
41 7 0.02
42 33 0.11
43 150 0.50
44 102 0.34
45 9 0.03
ACGTcount: A:0.26, C:0.00, G:0.31, T:0.44
Consensus pattern (42 bp):
AAGTTAAGGGTTAGGGTTTTTAAGTTAAGGGTTTAGGTTTTA
Found at i:45634354 original size:18 final size:18
Alignment explanation
Indices: 45634327--45634361 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
45634317 TAAAAAGAAA
* *
45634327 ACATATAAGGGTTAGGAT
1 ACATAAAAGGGCTAGGAT
45634345 ACATAAAAGGGCTAGGA
1 ACATAAAAGGGCTAGGA
45634362 AACGCACCTG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.43, C:0.09, G:0.29, T:0.20
Consensus pattern (18 bp):
ACATAAAAGGGCTAGGAT
Found at i:45634992 original size:7 final size:7
Alignment explanation
Indices: 45634982--45635021 Score: 62
Period size: 7 Copynumber: 5.7 Consensus size: 7
45634972 TTATATACAT
45634982 AATACTA
1 AATACTA
*
45634989 AATATTA
1 AATACTA
45634996 AATACTA
1 AATACTA
45635003 AATACTA
1 AATACTA
*
45635010 AGTACTA
1 AATACTA
45635017 AATAC
1 AATAC
45635022 CAATCGACTA
Statistics
Matches: 29, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
7 29 1.00
ACGTcount: A:0.55, C:0.12, G:0.03, T:0.30
Consensus pattern (7 bp):
AATACTA
Found at i:45636233 original size:11 final size:11
Alignment explanation
Indices: 45636219--45636295 Score: 72
Period size: 11 Copynumber: 6.9 Consensus size: 11
45636209 ATAAATATGG
45636219 ATTTGAGAGAA
1 ATTTGAGAGAA
*
45636230 ATTTTGA-AGGA
1 A-TTTGAGAGAA
45636241 ATTTGAGAGCAA
1 ATTTGAGAG-AA
45636253 ATTT-AGAGGAA
1 ATTTGAGA-GAA
45636264 ATTT-AGAAGAA
1 ATTTGAG-AGAA
45636275 A-TTGAGAGGAA
1 ATTTGAGA-GAA
45636286 ATTTGAGAGA
1 ATTTGAGAGA
45636296 GGATTAGTTT
Statistics
Matches: 56, Mismatches: 2, Indels: 16
0.76 0.03 0.22
Matches are distributed among these distances:
10 8 0.14
11 30 0.54
12 18 0.32
ACGTcount: A:0.44, C:0.01, G:0.27, T:0.27
Consensus pattern (11 bp):
ATTTGAGAGAA
Found at i:45636244 original size:22 final size:23
Alignment explanation
Indices: 45636219--45636295 Score: 83
Period size: 22 Copynumber: 3.4 Consensus size: 23
45636209 ATAAATATGG
45636219 ATTTGAGAGAAATTTTGAAGG-A
1 ATTTGAGAGAAATTTTGAAGGAA
*
45636241 ATTTGAGAGCAAATTTAG-AGGAA
1 ATTTGAGAG-AAATTTTGAAGGAA
45636264 ATTT-AGAAGAAA--TTGAGAGGAA
1 ATTTGAG-AGAAATTTTGA-AGGAA
45636286 ATTTGAGAGA
1 ATTTGAGAGA
45636296 GGATTAGTTT
Statistics
Matches: 47, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
20 2 0.04
22 29 0.62
23 16 0.34
ACGTcount: A:0.44, C:0.01, G:0.27, T:0.27
Consensus pattern (23 bp):
ATTTGAGAGAAATTTTGAAGGAA
Found at i:45650932 original size:34 final size:34
Alignment explanation
Indices: 45650889--45650956 Score: 136
Period size: 34 Copynumber: 2.0 Consensus size: 34
45650879 TTGGAAGAAA
45650889 AACTTATAATTTTTTTATTAATTTTGTTTATAAT
1 AACTTATAATTTTTTTATTAATTTTGTTTATAAT
45650923 AACTTATAATTTTTTTATTAATTTTGTTTATAAT
1 AACTTATAATTTTTTTATTAATTTTGTTTATAAT
45650957 TTTTAAAATT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 34 1.00
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (34 bp):
AACTTATAATTTTTTTATTAATTTTGTTTATAAT
Found at i:45650960 original size:13 final size:11
Alignment explanation
Indices: 45650892--45650960 Score: 68
Period size: 12 Copynumber: 6.0 Consensus size: 11
45650882 GAAGAAAAAC
45650892 TTATAATTTTT
1 TTATAATTTTT
45650903 TTATTAATTTTGT
1 TTA-TAATTTT-T
***
45650916 TTATAA-TAAC
1 TTATAATTTTT
45650926 TTATAATTTTT
1 TTATAATTTTT
45650937 TTATTAATTTTGT
1 TTA-TAATTTT-T
45650950 TTATAATTTTT
1 TTATAATTTTT
45650961 AAAATTTAAA
Statistics
Matches: 47, Mismatches: 6, Indels: 10
0.75 0.10 0.16
Matches are distributed among these distances:
10 6 0.13
11 9 0.19
12 24 0.51
13 8 0.17
ACGTcount: A:0.29, C:0.01, G:0.03, T:0.67
Consensus pattern (11 bp):
TTATAATTTTT
Found at i:45652448 original size:16 final size:16
Alignment explanation
Indices: 45652427--45652459 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
45652417 CTTCAACCTC
*
45652427 TCATTTCCTTCTCATT
1 TCATTTCCTCCTCATT
45652443 TCATTTCCTCCTCATT
1 TCATTTCCTCCTCATT
45652459 T
1 T
45652460 GCTCTCCGTC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.12, C:0.33, G:0.00, T:0.55
Consensus pattern (16 bp):
TCATTTCCTCCTCATT
Found at i:45653078 original size:18 final size:18
Alignment explanation
Indices: 45653055--45653092 Score: 76
Period size: 18 Copynumber: 2.1 Consensus size: 18
45653045 CTATCTGTTG
45653055 TTGTTTAAAGTTGTGCAT
1 TTGTTTAAAGTTGTGCAT
45653073 TTGTTTAAAGTTGTGCAT
1 TTGTTTAAAGTTGTGCAT
45653091 TT
1 TT
45653093 TTTTCAATTG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.21, C:0.05, G:0.21, T:0.53
Consensus pattern (18 bp):
TTGTTTAAAGTTGTGCAT
Found at i:45654602 original size:20 final size:20
Alignment explanation
Indices: 45654577--45654616 Score: 53
Period size: 20 Copynumber: 2.0 Consensus size: 20
45654567 AATATTTTCC
* *
45654577 AGTAAATCATTTTACAGAAA
1 AGTAAAACACTTTACAGAAA
*
45654597 AGTAAAACACTTTCCAGAAA
1 AGTAAAACACTTTACAGAAA
45654617 TCATTTTACG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.50, C:0.15, G:0.10, T:0.25
Consensus pattern (20 bp):
AGTAAAACACTTTACAGAAA
Found at i:45668331 original size:44 final size:44
Alignment explanation
Indices: 45668268--45668948 Score: 327
Period size: 44 Copynumber: 15.7 Consensus size: 44
45668258 CTTGGGTCTA
45668268 CTCCACTGCAACTTCAGGGAGATAAGATTATCGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATCGGCTTTAATCTG
** ** *** * *
45668312 CTCCACTGCAACTTCAGGGAGATAAGATCTGCCATCCCCAGTCTA
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TATCGGCTTTAATCTG
* *** *
45668357 C-CTCACTGCAACTTCA-GGAGGATAAGACTTGTTTAC-TTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGA-TTATCGGCTTTAATCTG
* * ***
45668401 CTCCACTGCAACTTCAGGGAGATAAGACTA---GATGCGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATCGGCTTTAATCTG
* * * * * * **
45668442 -TTCTCTGCAACTTCAGAGAGATAAGATCCA-AGGTTTTAATCCA
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TATCGGCTTTAATCTG
*
45668485 CTCCACTGCAACTTCAGAGAGAT-AGAATTATCGGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAG-ATTATCGGCTTTAATCTG
* * ** * *
45668529 CTCTACTGCAACTTCAGGGAGATAAGATTTGTCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGA-TTATCGGCTTTAATCTG
* * *** *
45668574 C-CTCACTACAACTTCAGGG-GATAAGACTTGTTTAC-TTAGTCTG
1 CTC-CACTGCAACTTCAGGGAGATAAGA-TTATCGGCTTTAATCTG
* * * * * *
45668617 CTCCACTGCAACTTCAGGAAGATAAGA--CT-GGATGTGATTTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATCGGCTTTAATCTG
** * * * * *
45668658 CT-TTCTGCAACTTCAGAGAGATAAGATCCA-AGGTTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TATCGGCTTTAATCTG
* * * *
45668701 CTCCACTGCAACTTCAGGGAAATAGGGTTATCAGCTTTAATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATCGGCTTTAATCTG
* * * *
45668745 CTTCATTGCAACTTCAGGGAGATAAGATT-T-GCCATCTTCAGTCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATCGGC-T-TT-AATCTG
* *** *
45668790 C-CTCACTGCAACTTCA-GGAGGATAAGACTTGTTTAC-TTAGTCTG
1 CTC-CACTGCAACTTCAGGGA-GATAAGA-TTATCGGCTTTAATCTG
* ***
45668834 CTCCACTGCAACTTCAGGGAGATAAGATTA---GATGCGATCTG
1 CTCCACTGCAACTTCAGGGAGATAAGATTATCGGCTTTAATCTG
* * * * * *
45668875 CT-CTCTGCAACTTCAGAGAGATAAGATCCA-AGGTTTTAATCCG
1 CTCCACTGCAACTTCAGGGAGATAAGAT-TATCGGCTTTAATCTG
*
45668918 CTCCACTGCAACTTCAGGGAGATAGGATTAT
1 CTCCACTGCAACTTCAGGGAGATAAGATTAT
45668949 TGGCCACCGA
Statistics
Matches: 478, Mismatches: 118, Indels: 82
0.71 0.17 0.12
Matches are distributed among these distances:
40 66 0.14
41 19 0.04
42 1 0.00
43 54 0.11
44 238 0.50
45 95 0.20
46 3 0.01
47 1 0.00
48 1 0.00
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (44 bp):
CTCCACTGCAACTTCAGGGAGATAAGATTATCGGCTTTAATCTG
Found at i:45668668 original size:172 final size:173
Alignment explanation
Indices: 45668490--45668818 Score: 400
Period size: 172 Copynumber: 1.9 Consensus size: 173
45668480 ATCCACTCCA
* * * * *
45668490 CTGCAACTTCAGAGAGAT-AGAAT-TATCGGCTTTAATCTGCTCTACTGCAACTTCAGGGAGATA
1 CTGCAACTTCAGAGAGATAAG-ATCCA-AGGCTTTAATCCGCTCCACTGCAACTTCAGGGAAAT-
* * * * **
45668553 AGATTTGTCATCTTCAGTCTGCCTCACTACAACTTCAGGG-GATAAGACTTG-TTTACTT-AGTC
63 AGAGTTATCAGCTTCAATCTGCCTCACTACAACTTCAGGGAGATAAGACTTGCCAT-CTTCAGTC
45668615 TG-CTCCACTGCAACTTCAGGAAGATAAGACTGGATGTGATTTGCTTT
127 TGCCT-CACTGCAACTTCAGGAAGATAAGACTGGATGTGATTTGCTTT
* *
45668662 CTGCAACTTCAGAGAGATAAGATCCAAGGTTTTAATCCGCTCCACTGCAACTTCAGGGAAATAGG
1 CTGCAACTTCAGAGAGATAAGATCCAAGGCTTTAATCCGCTCCACTGCAACTTCAGGGAAATAGA
* * * * *
45668727 GTTATCAGCTTTAATCTGCTTCATTGCAACTTCAGGGAGATAAGATTTGCCATCTTCAGTCTGCC
66 GTTATCAGCTTCAATCTGCCTCACTACAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTGCC
*
45668792 TCACTGCAACTTCAGGAGGATAAGACT
131 TCACTGCAACTTCAGGAAGATAAGACT
45668819 TGTTTACTTA
Statistics
Matches: 132, Mismatches: 19, Indels: 11
0.81 0.12 0.07
Matches are distributed among these distances:
171 31 0.23
172 64 0.48
173 35 0.27
174 2 0.02
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (173 bp):
CTGCAACTTCAGAGAGATAAGATCCAAGGCTTTAATCCGCTCCACTGCAACTTCAGGGAAATAGA
GTTATCAGCTTCAATCTGCCTCACTACAACTTCAGGGAGATAAGACTTGCCATCTTCAGTCTGCC
TCACTGCAACTTCAGGAAGATAAGACTGGATGTGATTTGCTTT
Found at i:45668915 original size:217 final size:217
Alignment explanation
Indices: 45668268--45668948 Score: 1141
Period size: 217 Copynumber: 3.1 Consensus size: 217
45668258 CTTGGGTCTA
* *
45668268 CTCCACTGCAACTTCAGGGAGATAAGATTATCGGCTTTAATCTGCTCCACTGCAACTTCAGGGAG
1 CTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTTCACTGCAACTTCAGGGAG
* ** *
45668333 ATAAGATCTGCCATCCCCAGTCTACCTCACTGCAACTTCAGGAGGATAAGACTTGTTTACTTAGT
66 ATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGTTTACTTAGT
*
45668398 CTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGTTCTCTGCAACTTCAGAGAGA
131 CTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGA
*
45668463 TAAGATCCAAGGTTTTAATCCA
196 TAAGATCCAAGGTTTTAATCCG
* *
45668485 CTCCACTGCAACTTCAGAGAGATAGAATTATCGGCTTTAATCTGC-TCTACTGCAACTTCAGGGA
1 CTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTTC-ACTGCAACTTCAGGGA
* *
45668549 GATAAGATTTGTCATCTTCAGTCTGCCTCACTACAACTTCAGG-GGATAAGACTTGTTTACTTAG
65 GATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGTTTACTTAG
* * * * *
45668613 TCTGCTCCACTGCAACTTCAGGAAGATAAGACTGGATGTGATTTGCTTTCTGCAACTTCAGAGAG
130 TCTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAG
45668678 ATAAGATCCAAGGTTTTAATCCG
195 ATAAGATCCAAGGTTTTAATCCG
* * * *
45668701 CTCCACTGCAACTTCAGGGAAATAGGGTTATCAGCTTTAATCTGCTTCATTGCAACTTCAGGGAG
1 CTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTTCACTGCAACTTCAGGGAG
45668766 ATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGTTTACTTAGT
66 ATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGTTTACTTAGT
*
45668831 CTGCTCCACTGCAACTTCAGGGAGATAAGATTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGA
131 CTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGA
45668896 TAAGATCCAAGGTTTTAATCCG
196 TAAGATCCAAGGTTTTAATCCG
45668918 CTCCACTGCAACTTCAGGGAGATAGGATTAT
1 CTCCACTGCAACTTCAGGGAGATAGGATTAT
45668949 TGGCCACCGA
Statistics
Matches: 428, Mismatches: 33, Indels: 6
0.92 0.07 0.01
Matches are distributed among these distances:
216 199 0.46
217 229 0.54
ACGTcount: A:0.28, C:0.23, G:0.20, T:0.29
Consensus pattern (217 bp):
CTCCACTGCAACTTCAGGGAGATAGGATTATCGGCTTTAATCTGCTTCACTGCAACTTCAGGGAG
ATAAGATTTGCCATCTTCAGTCTGCCTCACTGCAACTTCAGGAGGATAAGACTTGTTTACTTAGT
CTGCTCCACTGCAACTTCAGGGAGATAAGACTAGATGCGATCTGCTCTCTGCAACTTCAGAGAGA
TAAGATCCAAGGTTTTAATCCG
Found at i:45680887 original size:17 final size:17
Alignment explanation
Indices: 45680846--45680892 Score: 51
Period size: 17 Copynumber: 2.8 Consensus size: 17
45680836 AATGGCATAG
*
45680846 AAATAATATAAA-AAAAC
1 AAATAA-ATAAATAAAAA
*
45680863 AAACAAATAAATAAAAA
1 AAATAAATAAATAAAAA
*
45680880 AAATAAATCAATA
1 AAATAAATAAATA
45680893 GCATGCAAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
16 5 0.20
17 20 0.80
ACGTcount: A:0.77, C:0.06, G:0.00, T:0.17
Consensus pattern (17 bp):
AAATAAATAAATAAAAA
Found at i:45685537 original size:41 final size:41
Alignment explanation
Indices: 45685450--45685529 Score: 160
Period size: 41 Copynumber: 2.0 Consensus size: 41
45685440 AGGTTAGCCC
45685450 AAATTAAAAGTGATTTAATTTGGTTAAGGTTTATTGGGCCA
1 AAATTAAAAGTGATTTAATTTGGTTAAGGTTTATTGGGCCA
45685491 AAATTAAAAGTGATTTAATTTGGTTAAGGTTTATTGGGC
1 AAATTAAAAGTGATTTAATTTGGTTAAGGTTTATTGGGC
45685530 ATTAATTATT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.34, C:0.04, G:0.23, T:0.40
Consensus pattern (41 bp):
AAATTAAAAGTGATTTAATTTGGTTAAGGTTTATTGGGCCA
Found at i:45687959 original size:39 final size:39
Alignment explanation
Indices: 45687905--45687983 Score: 140
Period size: 39 Copynumber: 2.0 Consensus size: 39
45687895 TAAGCATTAC
*
45687905 AAATGCTTAGTAAGTTCACAGTTATCAAAATAACAACTT
1 AAATGCTTAGTAAGTTCACAGGTATCAAAATAACAACTT
*
45687944 AAATGCTTAGTAAGTTCATAGGTATCAAAATAACAACTT
1 AAATGCTTAGTAAGTTCACAGGTATCAAAATAACAACTT
45687983 A
1 A
45687984 CCTCATTTTA
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 38 1.00
ACGTcount: A:0.44, C:0.14, G:0.11, T:0.30
Consensus pattern (39 bp):
AAATGCTTAGTAAGTTCACAGGTATCAAAATAACAACTT
Found at i:45707716 original size:38 final size:38
Alignment explanation
Indices: 45707538--45707725 Score: 196
Period size: 38 Copynumber: 4.9 Consensus size: 38
45707528 CGTAACGTTA
* *
45707538 ATTCAGGCTTTGTGCCTAACAGGCTTTGTGCCGGTGAT
1 ATTCGGGCTTTGTGCCTAGCAGGCTTTGTGCCGGTGAT
* * * ***
45707576 ATTCGGTCTCTATGCCTAGCAGGCTACATGCCGGTGAT
1 ATTCGGGCTTTGTGCCTAGCAGGCTTTGTGCCGGTGAT
* * * * *
45707614 ATTTGGGTTTTGTGCCTAGCAGGTTTTGTACCGGCGAT
1 ATTCGGGCTTTGTGCCTAGCAGGCTTTGTGCCGGTGAT
* * * *
45707652 GTTCGGGCTTTGTGCCGAGCAAGCTTTGTGCTGGTGAT
1 ATTCGGGCTTTGTGCCTAGCAGGCTTTGTGCCGGTGAT
* * *
45707690 ATTCGGGCTCTGTGCCTAGTAGGCTTTGTGCTGGTG
1 ATTCGGGCTTTGTGCCTAGCAGGCTTTGTGCCGGTG
45707726 TAATTGTATC
Statistics
Matches: 117, Mismatches: 33, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
38 117 1.00
ACGTcount: A:0.13, C:0.20, G:0.32, T:0.35
Consensus pattern (38 bp):
ATTCGGGCTTTGTGCCTAGCAGGCTTTGTGCCGGTGAT
Found at i:45713633 original size:2 final size:2
Alignment explanation
Indices: 45713626--45713663 Score: 76
Period size: 2 Copynumber: 19.0 Consensus size: 2
45713616 ATCCAAATCC
45713626 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
45713664 GTAGCTTCAA
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 36 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:45714163 original size:46 final size:46
Alignment explanation
Indices: 45714094--45714224 Score: 190
Period size: 46 Copynumber: 2.8 Consensus size: 46
45714084 ATATTAATGA
* * *
45714094 ATTCTCGAGTTTGCAACATATGCAGGAGCTCGGAACCTAAACTTGT
1 ATTCTCGAGTCTGCAACACATGCAGGAGCTCGGAACCTAAACTTAT
* ***
45714140 ATTCTCGAGTCTGCAACACATGCAGGAGCTCAGAACCTATTTTTAT
1 ATTCTCGAGTCTGCAACACATGCAGGAGCTCGGAACCTAAACTTAT
*
45714186 ATTCTCGAGTCCGCAACACATGCAGGAGCTCGGAACCTA
1 ATTCTCGAGTCTGCAACACATGCAGGAGCTCGGAACCTA
45714225 CTCAAAAATA
Statistics
Matches: 76, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
46 76 1.00
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (46 bp):
ATTCTCGAGTCTGCAACACATGCAGGAGCTCGGAACCTAAACTTAT
Found at i:45722384 original size:26 final size:26
Alignment explanation
Indices: 45722355--45722406 Score: 95
Period size: 26 Copynumber: 2.0 Consensus size: 26
45722345 AGCCAACCCC
*
45722355 AAATTATTTTTCGGGGTATTATTGAT
1 AAATTATTTTTCGAGGTATTATTGAT
45722381 AAATTATTTTTCGAGGTATTATTGAT
1 AAATTATTTTTCGAGGTATTATTGAT
45722407 TCGAGCTTCC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.29, C:0.04, G:0.17, T:0.50
Consensus pattern (26 bp):
AAATTATTTTTCGAGGTATTATTGAT
Found at i:45724731 original size:25 final size:25
Alignment explanation
Indices: 45724577--45724728 Score: 252
Period size: 25 Copynumber: 6.1 Consensus size: 25
45724567 GATTAGCTCA
45724577 CTTCGGTAATCCTCATCAACTGTCG
1 CTTCGGTAATCCTCATCAACTGTCG
*
45724602 CTTCGGTAATCCTCATCAATTGTCG
1 CTTCGGTAATCCTCATCAACTGTCG
*
45724627 CTTCGGTAATCCTCATCAATTGTCG
1 CTTCGGTAATCCTCATCAACTGTCG
*
45724652 CTTCGGTAATCCTCAGCAACTGTCG
1 CTTCGGTAATCCTCATCAACTGTCG
*
45724677 CTT-GGTAATCCTCATCAACTGTCA
1 CTTCGGTAATCCTCATCAACTGTCG
*
45724701 CTTTGGTAATCCTCATCAACTGTCG
1 CTTCGGTAATCCTCATCAACTGTCG
45724726 CTT
1 CTT
45724729 TGGGTTCTTT
Statistics
Matches: 120, Mismatches: 6, Indels: 2
0.94 0.05 0.02
Matches are distributed among these distances:
24 22 0.18
25 98 0.82
ACGTcount: A:0.20, C:0.30, G:0.16, T:0.34
Consensus pattern (25 bp):
CTTCGGTAATCCTCATCAACTGTCG
Found at i:45729037 original size:27 final size:28
Alignment explanation
Indices: 45728998--45729051 Score: 83
Period size: 27 Copynumber: 2.0 Consensus size: 28
45728988 GCTCGATGTG
45728998 GTAAAACCACCGAATAAC-AATAATGCA
1 GTAAAACCACCGAATAACGAATAATGCA
**
45729025 GTAAAACTGCCGAATAACGAATAATGC
1 GTAAAACCACCGAATAACGAATAATGC
45729052 GATATAATTT
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
27 16 0.67
28 8 0.33
ACGTcount: A:0.48, C:0.20, G:0.15, T:0.17
Consensus pattern (28 bp):
GTAAAACCACCGAATAACGAATAATGCA
Found at i:45734571 original size:20 final size:20
Alignment explanation
Indices: 45734519--45734613 Score: 79
Period size: 20 Copynumber: 4.8 Consensus size: 20
45734509 GAGGTACTGA
*
45734519 AGTGCAAATAGAAGCACGAT
1 AGTGCAAATAGAGGCACGAT
* *
45734539 TGTGC-AATCAGAGGCACCAT
1 AGTGCAAAT-AGAGGCACGAT
*
45734559 AGTGCAAATAGAGACACTGA-
1 AGTGCAAATAGAGGCAC-GAT
*
45734579 AGTGTAAATAGAGGCACTGA-
1 AGTGCAAATAGAGGCAC-GAT
* *
45734599 AGTGCGAACAGAGGC
1 AGTGCAAATAGAGGC
45734614 TCTGAAGTGC
Statistics
Matches: 61, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
19 3 0.05
20 54 0.89
21 4 0.07
ACGTcount: A:0.39, C:0.17, G:0.28, T:0.16
Consensus pattern (20 bp):
AGTGCAAATAGAGGCACGAT
Found at i:45734603 original size:40 final size:42
Alignment explanation
Indices: 45734507--45734622 Score: 100
Period size: 40 Copynumber: 2.9 Consensus size: 42
45734497 AAATGTGTAA
* * *
45734507 CAGAGGTACTGAAGTGCAAATAGA-AGCAC-G-ATTGTGCAAT
1 CAGAGGCACTGAAGTGCAAATAGAGA-CACTGAAGTGTGAAAT
*
45734547 CAGAGGCAC-CATAGTGCAAATAGAGACACTGAAGTGT-AAAT
1 CAGAGGCACTGA-AGTGCAAATAGAGACACTGAAGTGTGAAAT
* * * *
45734588 -AGAGGCACTGAAGTGCGAACAGAGGCTCTGAAGTG
1 CAGAGGCACTGAAGTGCAAATAGAGACACTGAAGTG
45734623 CAATCCCGTA
Statistics
Matches: 62, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
39 1 0.02
40 51 0.82
41 6 0.10
42 4 0.06
ACGTcount: A:0.37, C:0.16, G:0.29, T:0.17
Consensus pattern (42 bp):
CAGAGGCACTGAAGTGCAAATAGAGACACTGAAGTGTGAAAT
Found at i:45745143 original size:41 final size:40
Alignment explanation
Indices: 45745085--45745217 Score: 131
Period size: 41 Copynumber: 3.2 Consensus size: 40
45745075 ACCGACATGT
* * * * *
45745085 AGCCTGCTAGGCTTAAAGCCTGATTCAGAACACCGGCATTA
1 AGCCTGCTAGACGTAAAGTCTGAAT-AGAACACCAGCATTA
***
45745126 AGCCTGCTAGACGTAAAGTCTGAAATATTTCACCAGCATTA
1 AGCCTGCTAGACGTAAAGTCTG-AATAGAACACCAGCATTA
*** *
45745167 AGCCTGCTAGACGTAAAGTCTGAATTATTTCACTAGCATTA
1 AGCCTGCTAGACGTAAAGTCTGAA-TAGAACACCAGCATTA
45745208 AGCCTGCTAG
1 AGCCTGCTAG
45745218 GCACAGAGCC
Statistics
Matches: 81, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
40 2 0.02
41 77 0.95
42 2 0.02
ACGTcount: A:0.31, C:0.23, G:0.20, T:0.26
Consensus pattern (40 bp):
AGCCTGCTAGACGTAAAGTCTGAATAGAACACCAGCATTA
Found at i:45745232 original size:41 final size:41
Alignment explanation
Indices: 45745115--45745217 Score: 179
Period size: 41 Copynumber: 2.5 Consensus size: 41
45745105 TGATTCAGAA
* *
45745115 CACCGGCATTAAGCCTGCTAGACGTAAAGTCTGAAATATTT
1 CACCAGCATTAAGCCTGCTAGACGTAAAGTCTGAATTATTT
45745156 CACCAGCATTAAGCCTGCTAGACGTAAAGTCTGAATTATTT
1 CACCAGCATTAAGCCTGCTAGACGTAAAGTCTGAATTATTT
*
45745197 CACTAGCATTAAGCCTGCTAG
1 CACCAGCATTAAGCCTGCTAG
45745218 GCACAGAGCC
Statistics
Matches: 59, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 59 1.00
ACGTcount: A:0.31, C:0.23, G:0.18, T:0.27
Consensus pattern (41 bp):
CACCAGCATTAAGCCTGCTAGACGTAAAGTCTGAATTATTT
Found at i:45745849 original size:2 final size:2
Alignment explanation
Indices: 45745842--45745873 Score: 64
Period size: 2 Copynumber: 16.0 Consensus size: 2
45745832 CTAATGTATG
45745842 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
45745874 TCTAATTTGA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 30 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:45757105 original size:25 final size:25
Alignment explanation
Indices: 45757077--45757124 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
45757067 CACTTAACGG
* *
45757077 GAAGCTCTTTTGAGCCATATAACTT
1 GAAGCTCATGTGAGCCATATAACTT
*
45757102 GAAGCTCATGTGAGCCATGTAAC
1 GAAGCTCATGTGAGCCATATAAC
45757125 AGAAAGCTCC
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (25 bp):
GAAGCTCATGTGAGCCATATAACTT
Found at i:45763537 original size:21 final size:21
Alignment explanation
Indices: 45763511--45763560 Score: 86
Period size: 19 Copynumber: 2.5 Consensus size: 21
45763501 TATCCTCCAG
45763511 GATTGCATATATCATATCTAA
1 GATTGCATATATCATATCTAA
45763532 GATTGC--ATATCATATCTAA
1 GATTGCATATATCATATCTAA
45763551 GATTGCATAT
1 GATTGCATAT
45763561 CCTTGAAGAT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 19 0.70
21 8 0.30
ACGTcount: A:0.36, C:0.14, G:0.12, T:0.38
Consensus pattern (21 bp):
GATTGCATATATCATATCTAA
Found at i:45765734 original size:30 final size:30
Alignment explanation
Indices: 45765693--45765960 Score: 226
Period size: 30 Copynumber: 9.0 Consensus size: 30
45765683 AAAATCACGG
* * *
45765693 TGGTTATCACCATCTCTTTTCATAATTCAA
1 TGGTCATCACCATCCCTTTTCATAATTCGA
*
45765723 TGGTCATCACCATCCCATTTCATAATT-GA
1 TGGTCATCACCATCCCTTTTCATAATTCGA
** * *
45765752 TGGTTGTCACCATCCTTTTTCATAAATCGA
1 TGGTCATCACCATCCCTTTTCATAATTCGA
* * *
45765782 TAG-C-TGAAGCTATCCCTTTTCATAATTCGA
1 TGGTCAT-CA-CCATCCCTTTTCATAATTCGA
* *
45765812 TGGTCGTCACCATCCCTTTTCATAGTT-GA
1 TGGTCATCACCATCCCTTTTCATAATTCGA
*
45765841 TGGTCATCACCATCCCTTTTCATAATTTGA
1 TGGTCATCACCATCCCTTTTCATAATTCGA
*** * * *
45765871 CAATCGA--AGCTATCCTTTTTCATAATTCAA
1 TGGTC-ATCA-CCATCCCTTTTCATAATTCGA
* *
45765901 TGGTCGTCACCATCCCTTTTCATAGTT-GA
1 TGGTCATCACCATCCCTTTTCATAATTCGA
* * *
45765930 TGGTCGTCGCCATCCTTTTTCATAATTCGA
1 TGGTCATCACCATCCCTTTTCATAATTCGA
45765960 T
1 T
45765961 AGTTGAAGCT
Statistics
Matches: 188, Mismatches: 39, Indels: 22
0.76 0.16 0.09
Matches are distributed among these distances:
28 1 0.01
29 77 0.41
30 105 0.56
31 4 0.02
32 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.12, T:0.39
Consensus pattern (30 bp):
TGGTCATCACCATCCCTTTTCATAATTCGA
Found at i:45765860 original size:59 final size:59
Alignment explanation
Indices: 45765699--45765957 Score: 267
Period size: 59 Copynumber: 4.4 Consensus size: 59
45765689 ACGGTGGTTA
* *
45765699 TCACCAT-CTCTTTTCATAATTCAATGGTCATCACCATCCCATTTCATAATTGATGGTTG
1 TCACCATCCT-TTTTCATAATTCAATGGTCATCACCATCCCTTTTCATAATTGATGGTCG
* * * * *
45765758 TCACCATCCTTTTTCATAAATCGATAG-C-TGAAGCTATCCCTTTTCATAATTCGATGGTCG
1 TCACCATCCTTTTTCATAATTCAATGGTCAT-CA-CCATCCCTTTTCATAATT-GATGGTCG
* * * ***
45765818 TCACCATCCCTTTTCATAGTT-GATGGTCATCACCATCCCTTTTCATAATTTGACAATCG
1 TCACCATCCTTTTTCATAATTCAATGGTCATCACCATCCCTTTTCATAA-TTGATGGTCG
* * * *
45765877 -AAGCTATCCTTTTTCATAATTCAATGGTCGTCACCATCCCTTTTCATAGTTGATGGTCG
1 TCA-CCATCCTTTTTCATAATTCAATGGTCATCACCATCCCTTTTCATAATTGATGGTCG
*
45765936 TCGCCATCCTTTTTCATAATTC
1 TCACCATCCTTTTTCATAATTC
45765958 GATAGTTGAA
Statistics
Matches: 161, Mismatches: 29, Indels: 20
0.77 0.14 0.10
Matches are distributed among these distances:
57 1 0.01
58 3 0.02
59 101 0.63
60 55 0.34
61 1 0.01
ACGTcount: A:0.24, C:0.26, G:0.12, T:0.39
Consensus pattern (59 bp):
TCACCATCCTTTTTCATAATTCAATGGTCATCACCATCCCTTTTCATAATTGATGGTCG
Found at i:45765861 original size:89 final size:89
Alignment explanation
Indices: 45765708--45765984 Score: 412
Period size: 89 Copynumber: 3.1 Consensus size: 89
45765698 ATCACCATCT
* * * *
45765708 CTTTTCATAATTCAATGGTCATCACCATCCCATTTCATAATTGATGGTTGTCACCATCCTTTTTC
1 CTTTTCATAATTCAATGGTCGTCACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCTTTTTC
* *
45765773 ATAAATCGATAGCTGAAGCTATCC
66 ATAATTCGATAGATGAAGCTATCC
* * *
45765797 CTTTTCATAATTCGATGGTCGTCACCATCCCTTTTCATAGTTGATGGTCATCACCATCCCTTTTC
1 CTTTTCATAATTCAATGGTCGTCACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCTTTTTC
* *
45765862 ATAATTTGACA-ATCGAAGCTATCC
66 ATAATTCGATAGAT-GAAGCTATCC
* *
45765886 TTTTTCATAATTCAATGGTCGTCACCATCCCTTTTCATAGTTGATGGTCGTCGCCATCCTTTTTC
1 CTTTTCATAATTCAATGGTCGTCACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCTTTTTC
*
45765951 ATAATTCGATAGTTGAAGCTATCC
66 ATAATTCGATAGATGAAGCTATCC
45765975 CTTTTCATAA
1 CTTTTCATAA
45765985 AATGCTATTT
Statistics
Matches: 166, Mismatches: 20, Indels: 4
0.87 0.11 0.02
Matches are distributed among these distances:
88 1 0.01
89 164 0.99
90 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.12, T:0.39
Consensus pattern (89 bp):
CTTTTCATAATTCAATGGTCGTCACCATCCCTTTTCATAGTTGATGGTCGTCACCATCCTTTTTC
ATAATTCGATAGATGAAGCTATCC
Found at i:45765975 original size:59 final size:58
Alignment explanation
Indices: 45765731--45765984 Score: 226
Period size: 59 Copynumber: 4.3 Consensus size: 58
45765721 AATGGTCATC
* * * *
45765731 ACCATCCCATTTCATAATTGATGGTTGTCACCATCCTTTTTCATAAATCGATAGCTGA
1 ACCATCCCTTTTCATAATTGATGGTCGTCACCATCCTTTTTCATAATTCGATAGTTGA
* * * * *
45765789 AGCTATCCCTTTTCATAATTCGATGGTCGTCACCATCCCTTTTCATAGTT-GATGGTCAT-C
1 A-CCATCCCTTTTCATAATT-GATGGTCGTCACCATCCTTTTTCATAATTCGATAGT--TGA
*** * * * * * *
45765849 ACCATCCCTTTTCATAATTTGACAATCG-AAGCTATCCTTTTTCATAATTCAATGGTCGTC
1 ACCATCCCTTTTCATAA-TTGATGGTCGTCA-CCATCCTTTTTCATAATTCGATAGTTG-A
* *
45765909 ACCATCCCTTTTCATAGTTGATGGTCGTCGCCATCCTTTTTCATAATTCGATAGTTGA
1 ACCATCCCTTTTCATAATTGATGGTCGTCACCATCCTTTTTCATAATTCGATAGTTGA
*
45765967 AGCTATCCCTTTTCATAA
1 A-CCATCCCTTTTCATAA
45765985 AATGCTATTT
Statistics
Matches: 153, Mismatches: 32, Indels: 21
0.74 0.16 0.10
Matches are distributed among these distances:
58 3 0.02
59 99 0.65
60 50 0.33
61 1 0.01
ACGTcount: A:0.24, C:0.25, G:0.13, T:0.38
Consensus pattern (58 bp):
ACCATCCCTTTTCATAATTGATGGTCGTCACCATCCTTTTTCATAATTCGATAGTTGA
Found at i:45772713 original size:49 final size:49
Alignment explanation
Indices: 45772653--45772792 Score: 217
Period size: 49 Copynumber: 2.9 Consensus size: 49
45772643 ACTTATTTTC
* * *
45772653 TCGATGCCATAGTCCAACTATGGTCTTACATGTAATCACATAACATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATAACATATA
* *
45772702 TCGATGTCATAGCCCAGCTATGGCCTTACACGTAATCACATAACATATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATAACATATA
* *
45772751 CCGATGCCATAGCCCAGCTATGGTCTTACACGGAATCACATA
1 TCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATA
45772793 TCACTTATTG
Statistics
Matches: 82, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
49 82 1.00
ACGTcount: A:0.32, C:0.26, G:0.15, T:0.26
Consensus pattern (49 bp):
TCGATGCCATAGCCCAGCTATGGTCTTACACGTAATCACATAACATATA
Found at i:45774007 original size:23 final size:23
Alignment explanation
Indices: 45773972--45774045 Score: 112
Period size: 23 Copynumber: 3.2 Consensus size: 23
45773962 ATAAGTGCCA
*
45773972 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGTAGCTAC
* * *
45773995 CACTCATACGTAGCCTTAGCTAC
1 CACTGATATGTAGCCGTAGCTAC
45774018 CACTGATATGTAGCCGTAGCTAC
1 CACTGATATGTAGCCGTAGCTAC
45774041 CACTG
1 CACTG
45774046 GTCAATAACA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 44 1.00
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (23 bp):
CACTGATATGTAGCCGTAGCTAC
Found at i:45775643 original size:121 final size:121
Alignment explanation
Indices: 45775508--45775746 Score: 451
Period size: 121 Copynumber: 2.0 Consensus size: 121
45775498 CAACACCTAG
*
45775508 AACCCCTCAACAAAATAGAGTTGTTGAGAGGAAAAATAGAACTTTAGAAGAAATTTCTAGAACCA
1 AACCCCTCAACAAAATAGAGTTGTTGAGAGGAAAAATAGAACTTTAGAAGAAATTTCTACAACCA
*
45775573 TGCTTTGTTAAAACAATTTGCCAAAATATTTTTGGGTAGAAGCCATAAACACTACA
66 TGCTTTGTTAAAACAATTTGCCAAAATATTTTTGGGTAAAAGCCATAAACACTACA
*
45775629 AACCCCTCAACAAAATGGAGTTGTTGAGAGGAAAAATAGAACTTTAGAAGAAATTTCTACAACCA
1 AACCCCTCAACAAAATAGAGTTGTTGAGAGGAAAAATAGAACTTTAGAAGAAATTTCTACAACCA
45775694 TGCTTTGTTAAAACAATTTGCCAAAATATTTTTGGGTAAAAGCCATAAACACT
66 TGCTTTGTTAAAACAATTTGCCAAAATATTTTTGGGTAAAAGCCATAAACACT
45775747 GCATGCTATA
Statistics
Matches: 115, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
121 115 1.00
ACGTcount: A:0.42, C:0.16, G:0.15, T:0.27
Consensus pattern (121 bp):
AACCCCTCAACAAAATAGAGTTGTTGAGAGGAAAAATAGAACTTTAGAAGAAATTTCTACAACCA
TGCTTTGTTAAAACAATTTGCCAAAATATTTTTGGGTAAAAGCCATAAACACTACA
Found at i:45785588 original size:18 final size:18
Alignment explanation
Indices: 45785516--45785588 Score: 51
Period size: 18 Copynumber: 3.9 Consensus size: 18
45785506 CAATTTCACA
* *
45785516 TTTTATATTTAAGATACA
1 TTTTATATTTAAAATACT
**
45785534 TTTTAT-TAAAAAATCACATT
1 TTTTATATTTAAAAT-AC--T
*
45785554 TTTTATATTTAATATACT
1 TTTTATATTTAAAATACT
45785572 TTTTA-ATTTCAAAATAC
1 TTTTATATTT-AAAATAC
45785589 ATAGTGAAAA
Statistics
Matches: 42, Mismatches: 8, Indels: 10
0.70 0.13 0.17
Matches are distributed among these distances:
17 9 0.21
18 20 0.48
20 8 0.19
21 5 0.12
ACGTcount: A:0.40, C:0.08, G:0.01, T:0.51
Consensus pattern (18 bp):
TTTTATATTTAAAATACT
Found at i:45799998 original size:2 final size:2
Alignment explanation
Indices: 45799991--45800023 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
45799981 ATAAAATTTA
45799991 AT AT 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 AT AT A
45800024 AATCCATACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:45800264 original size:41 final size:41
Alignment explanation
Indices: 45800219--45800379 Score: 304
Period size: 41 Copynumber: 3.9 Consensus size: 41
45800209 ACTGGCACTT
*
45800219 AGCCTGCTAGACGTAAAGTCTGAAATGTTTCACCGGCGTCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
*
45800260 AGCCTGCTAGACATAAAGTCTGAAATGTTTCACCGGCGTCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
45800301 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
45800342 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCG
1 AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCG
45800380 NNNNNNNNNN
Statistics
Matches: 118, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 118 1.00
ACGTcount: A:0.27, C:0.24, G:0.23, T:0.25
Consensus pattern (41 bp):
AGCCTGCTAGACTTAAAGTCTGAAATGTTTCACCGGCGTCA
Found at i:45801430 original size:2 final size:2
Alignment explanation
Indices: 45801423--45801452 Score: 51
Period size: 2 Copynumber: 15.0 Consensus size: 2
45801413 AATACAATAG
*
45801423 AT AT AT AT AT AT GT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
45801453 TAATAACATT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.47, C:0.00, G:0.03, T:0.50
Consensus pattern (2 bp):
AT
Found at i:45802194 original size:28 final size:26
Alignment explanation
Indices: 45802154--45802205 Score: 86
Period size: 28 Copynumber: 1.9 Consensus size: 26
45802144 TTTTTAATGT
45802154 TTATTATAACATAATAATATATTATACC
1 TTATTATAACAT-AT-ATATATTATACC
45802182 TTATTATAACATATATATATTATA
1 TTATTATAACATATATATATTATA
45802206 TTAATAATAT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 10 0.42
27 2 0.08
28 12 0.50
ACGTcount: A:0.46, C:0.08, G:0.00, T:0.46
Consensus pattern (26 bp):
TTATTATAACATATATATATTATACC
Found at i:45804614 original size:41 final size:41
Alignment explanation
Indices: 45804569--45804986 Score: 527
Period size: 41 Copynumber: 10.2 Consensus size: 41
45804559 GGAAAAGTAT
* * * *
45804569 CGCTAATGCTGGGGGCTTTAGCAGCG-TTTTTGAAAAA-GC
1 CGCTAATGCTCGGGTCTTTAGCGGCGCTTTTTCAAAAACGC
*
45804608 AGCGCTAATGCTCGGGTCTTTAGCGGCACTTTTTCAAAAACGC
1 --CGCTAATGCTCGGGTCTTTAGCGGCGCTTTTTCAAAAACGC
* **
45804651 CGCTAATGCTCGGGTCTTTAGCGGCGCTTTTTTAAAAACAT
1 CGCTAATGCTCGGGTCTTTAGCGGCGCTTTTTCAAAAACGC
* * *
45804692 TGCTAATGCTCGGGTCTTTGGCGGCGCTTTTTCTAAAACGC
1 CGCTAATGCTCGGGTCTTTAGCGGCGCTTTTTCAAAAACGC
* * * *
45804733 CGCTAATGCTCGGGTCTTTAGCGGTGCTTTTTCATAAATGT
1 CGCTAATGCTCGGGTCTTTAGCGGCGCTTTTTCAAAAACGC
45804774 CGCTAATGCTCGGGTCTTTAGCGGCGCTTTTTCAAAAACGC
1 CGCTAATGCTCGGGTCTTTAGCGGCGCTTTTTCAAAAACGC
*
45804815 CGCTAATGCTCGGGTCTTTAGCGGCGCTTTTTTAAAAACGC
1 CGCTAATGCTCGGGTCTTTAGCGGCGCTTTTTCAAAAACGC
* * *
45804856 CACTAATGCTCGAGTCTTTAGCGGCGCTTTTTTAAAAACGC
1 CGCTAATGCTCGGGTCTTTAGCGGCGCTTTTTCAAAAACGC
* * * * * *
45804897 CACTAATGCTTGGGTTTTTAGCGACGCTTTTTTAAAAAAAGC
1 CGCTAATGCTCGGGTCTTTAGCGGCGC-TTTTTCAAAAACGC
* *
45804939 CGCTAATGCTCGGGTCTTTAGCGGC-TTTTTTGAAAAAGCGC
1 CGCTAATGCTCGGGTCTTTAGCGGCGCTTTTTCAAAAA-CGC
*
45804980 TGCTAAT
1 CGCTAAT
45804987 CCCAAATTGA
Statistics
Matches: 330, Mismatches: 43, Indels: 8
0.87 0.11 0.02
Matches are distributed among these distances:
40 10 0.03
41 275 0.83
42 43 0.13
43 2 0.01
ACGTcount: A:0.21, C:0.22, G:0.24, T:0.33
Consensus pattern (41 bp):
CGCTAATGCTCGGGTCTTTAGCGGCGCTTTTTCAAAAACGC
Found at i:45806064 original size:21 final size:23
Alignment explanation
Indices: 45806040--45806084 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
45806030 TTTAATTAAT
45806040 TAACAT-ACTT-TTTTTATTGAC
1 TAACATCACTTGTTTTTATTGAC
*
45806061 TAACATCTCTTGTTTTTATTGAC
1 TAACATCACTTGTTTTTATTGAC
45806084 T
1 T
45806085 CCTTTTATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 6 0.29
22 3 0.14
23 12 0.57
ACGTcount: A:0.24, C:0.16, G:0.07, T:0.53
Consensus pattern (23 bp):
TAACATCACTTGTTTTTATTGAC
Found at i:45810781 original size:85 final size:85
Alignment explanation
Indices: 45810675--45811024 Score: 219
Period size: 86 Copynumber: 4.1 Consensus size: 85
45810665 AAGTTATGCT
* ** * * *
45810675 TTTAGTGGCGTTTGT-CAAAAAGCGTCGCTAAAAGTCAATG-TTATAGCGGCATTTTTAATAGAA
1 TTTAGCGGCGTTTGTGGGAAAAGCGTCACTAAAAGTC-ATGTTTATAGCGGCATTTTTAAGAAAA
*
45810738 GCGCCGCTAAAGGTCATGAG-C
65 GCGCCGCCAAAGGTCATG-GTC
* * * * *
45810759 TTTAGCGGCGTTTGTGGGAAAAGCGTCACTAAAGGTCTTGTTTTTAGCGGCGTTTTTGAGAAAAG
1 TTTAGCGGCGTTTGTGGGAAAAGCGTCACTAAAAGTCATGTTTATAGCGGCATTTTTAAGAAAAG
*
45810824 CGCCGCCAAAGGTCTTGGTC
66 CGCCGCCAAAGGTCATGGTC
* ** * * * * ** **
45810844 TTTAGCGGCGTTTCTGGGAAAAATGCCGCTAAAGGTCTTGGTCTT-TAATGGC-TTTTGTGGGAA
1 TTTAGCGGCGTTTGTGGGAAAAGCGTCACTAAAAGTCAT-GT-TTATAGCGGCATTTT-TAAGAA
* * *
45810907 AAGCGTCGCTAAAGGTCCTGGTC
63 AAGCGCCGCCAAAGGTCATGGTC
* * * * * ** * **
45810930 TTTAGCGGTGTTTGT-GGAAAAGGGACCGCTAAAAGTCCTGGTCTT-TAGCGGTGTTTGTGGGAA
1 TTTAGCGGCGTTTGTGGGAAAAGCG-TCACTAAAAGTCAT-GT-TTATAGCGGCATTTTTAAGAA
* * *
45810993 AAGTGCCGCTAAAGGTCTTGGTC
63 AAGCGCCGCCAAAGGTCATGGTC
45811016 TTTAGCGGC
1 TTTAGCGGC
45811025 TTTTTTTCTA
Statistics
Matches: 220, Mismatches: 38, Indels: 14
0.81 0.14 0.05
Matches are distributed among these distances:
84 17 0.08
85 97 0.44
86 101 0.46
87 5 0.02
ACGTcount: A:0.23, C:0.17, G:0.30, T:0.30
Consensus pattern (85 bp):
TTTAGCGGCGTTTGTGGGAAAAGCGTCACTAAAAGTCATGTTTATAGCGGCATTTTTAAGAAAAG
CGCCGCCAAAGGTCATGGTC
Found at i:45810783 original size:43 final size:43
Alignment explanation
Indices: 45810736--45811024 Score: 350
Period size: 43 Copynumber: 6.7 Consensus size: 43
45810726 TTTTTAATAG
*
45810736 AAGCGCCGCTAAAGGTCATGAG-CTTTAGCGGCGTTTGTGGGAA
1 AAGCGCCGCTAAAGGTCTTG-GTCTTTAGCGGCGTTTGTGGGAA
* * * * *
45810779 AAGCGTCACTAAAGGTCTT-GTTTTTAGCGGCGTTTTTGAGAA
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAA
* *
45810821 AAGCGCCGCCAAAGGTCTTGGTCTTTAGCGGCGTTTCTGGGAA
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAA
** ** *
45810864 AAATGCCGCTAAAGGTCTTGGTCTTTAATGGCTTTTGTGGGAA
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAA
* * *
45810907 AAGCGTCGCTAAAGGTCCTGGTCTTTAGCGGTGTTTGT-GGAA
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAA
* * * *
45810949 AAGGGACCGCTAAAAGTCCTGGTCTTTAGCGGTGTTTGTGGGAA
1 AAGCG-CCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAA
*
45810993 AAGTGCCGCTAAAGGTCTTGGTCTTTAGCGGC
1 AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGC
45811025 TTTTTTTCTA
Statistics
Matches: 208, Mismatches: 34, Indels: 8
0.83 0.14 0.03
Matches are distributed among these distances:
41 1 0.00
42 42 0.20
43 157 0.75
44 8 0.04
ACGTcount: A:0.21, C:0.18, G:0.31, T:0.29
Consensus pattern (43 bp):
AAGCGCCGCTAAAGGTCTTGGTCTTTAGCGGCGTTTGTGGGAA
Found at i:45811008 original size:129 final size:128
Alignment explanation
Indices: 45810740--45811028 Score: 393
Period size: 129 Copynumber: 2.2 Consensus size: 128
45810730 TAATAGAAGC
* * * *
45810740 GCCGCTAAAGGTCATGAG-CTTTAGCGGCGTTTGTGGGAAAAGCGTCACTAAAGGTCTTGTTTTT
1 GCCGCTAAAGGTCTTG-GTCTTTAGCGGCTTTTGTGGGAAAAGCGTCACTAAAGGTCTGGTCTTT
* * *
45810804 AGCGGCGTTTTTGAGAAAAGCGCCGCCAAAGGTCTTGGTCTTTAGCGGCGTTTCTGGGAAAAAT
65 AGCGGCGTTTGTGAGAAAAGCGCCGCCAAAAGTCCTGGTCTTTAGCGGCGTTTCTGGGAAAAAT
** *
45810868 GCCGCTAAAGGTCTTGGTCTTTAATGGCTTTTGTGGGAAAAGCGTCGCTAAAGGTCCTGGTCTTT
1 GCCGCTAAAGGTCTTGGTCTTTAGCGGCTTTTGTGGGAAAAGCGTCACTAAAGGT-CTGGTCTTT
* * * * * *
45810933 AGCGGTGTTTGTG-GAAAAGGGACCGCTAAAAGTCCTGGTCTTTAGCGGTGTTTGTGGGAAAAGT
65 AGCGGCGTTTGTGAGAAAAGCG-CCGCCAAAAGTCCTGGTCTTTAGCGGCGTTTCTGGGAAAAAT
45810997 GCCGCTAAAGGTCTTGGTCTTTAGCGGCTTTT
1 GCCGCTAAAGGTCTTGGTCTTTAGCGGCTTTT
45811029 TTTCTAAAAA
Statistics
Matches: 140, Mismatches: 18, Indels: 5
0.86 0.11 0.03
Matches are distributed among these distances:
127 1 0.01
128 55 0.39
129 84 0.60
ACGTcount: A:0.21, C:0.17, G:0.31, T:0.31
Consensus pattern (128 bp):
GCCGCTAAAGGTCTTGGTCTTTAGCGGCTTTTGTGGGAAAAGCGTCACTAAAGGTCTGGTCTTTA
GCGGCGTTTGTGAGAAAAGCGCCGCCAAAAGTCCTGGTCTTTAGCGGCGTTTCTGGGAAAAAT
Found at i:45816690 original size:24 final size:25
Alignment explanation
Indices: 45816663--45816717 Score: 76
Period size: 25 Copynumber: 2.2 Consensus size: 25
45816653 ATCATTAAGG
* * *
45816663 TTACCGATTCT-AGCTCTTATGAGC
1 TTACCGATACTCAACTCGTATGAGC
45816687 TTACCGATACTCAACTCGTATGAGC
1 TTACCGATACTCAACTCGTATGAGC
45816712 TTACCG
1 TTACCG
45816718 TTATTTCAGC
Statistics
Matches: 27, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
24 10 0.37
25 17 0.63
ACGTcount: A:0.24, C:0.27, G:0.16, T:0.33
Consensus pattern (25 bp):
TTACCGATACTCAACTCGTATGAGC
Found at i:45833459 original size:68 final size:68
Alignment explanation
Indices: 45833336--45833612 Score: 317
Period size: 68 Copynumber: 4.1 Consensus size: 68
45833326 TCAAAATTGA
* * * * * * * *
45833336 AAGTCTGTCTAGAAAATAAACATGGGATCATATTGTGTAAGACCACAGTTTGGCTATGGCAACAT
1 AAGTCTGCCAAGACAATAAACATGGGATCATATTGTGTAAAACAATAGCTCGGCTATGGCAACAT
45833401 ATG
66 ATG
* * * *
45833404 AAGTCTGCCAAGACAATAAACATGAGATCATATTGTATAAAATC-ATTGCTCGGCTATAGCAACA
1 AAGTCTGCCAAGACAATAAACATGGGATCATATTGTGTAAAA-CAATAGCTCGGCTATGGCAACA
45833468 TATG
65 TATG
* * * *
45833472 AAGTCTGCCAAGACAATAAACAAGGGAACATATTGTGTAAAACTATAGCTCGACTATGGCAACAT
1 AAGTCTGCCAAGACAATAAACATGGGATCATATTGTGTAAAACAATAGCTCGGCTATGGCAACAT
45833537 ATGG
66 AT-G
* * * * *
45833541 AA-TCCT-CCAGGACAATAAACATGGAATCATATTGTGTAAGACAATAGGTAGGCTATGGCAACA
1 AAGT-CTGCCAAGACAATAAACATGGGATCATATTGTGTAAAACAATAGCTCGGCTATGGCAACA
45833604 TATG
65 TATG
45833608 AAGTC
1 AAGTC
45833613 CACCAAGATG
Statistics
Matches: 177, Mismatches: 27, Indels: 11
0.82 0.13 0.05
Matches are distributed among these distances:
67 5 0.03
68 166 0.94
69 6 0.03
ACGTcount: A:0.39, C:0.17, G:0.20, T:0.25
Consensus pattern (68 bp):
AAGTCTGCCAAGACAATAAACATGGGATCATATTGTGTAAAACAATAGCTCGGCTATGGCAACAT
ATG
Found at i:45838108 original size:12 final size:12
Alignment explanation
Indices: 45838091--45838115 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
45838081 GGTGTTCATT
45838091 CGGTTAACCGAC
1 CGGTTAACCGAC
45838103 CGGTTAACCGAC
1 CGGTTAACCGAC
45838115 C
1 C
45838116 CGAAATAACA
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:0.24, C:0.36, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTTAACCGAC
Found at i:45838288 original size:9 final size:9
Alignment explanation
Indices: 45838274--45838349 Score: 91
Period size: 9 Copynumber: 8.4 Consensus size: 9
45838264 TTTGGTTAAA
45838274 AATTAACCG
1 AATTAACCG
*
45838283 AATTAATCG
1 AATTAACCG
45838292 AATTAACCG
1 AATTAACCG
45838301 AATTAACCG
1 AATTAACCG
45838310 AATT-ACTCG
1 AATTAAC-CG
* *
45838319 AATTACCCA
1 AATTAACCG
*
45838328 AATTAACTG
1 AATTAACCG
*
45838337 AATTAACCA
1 AATTAACCG
45838346 AATT
1 AATT
45838350 GAATCACTAC
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
8 2 0.04
9 53 0.95
10 1 0.02
ACGTcount: A:0.45, C:0.20, G:0.08, T:0.28
Consensus pattern (9 bp):
AATTAACCG
Found at i:45838304 original size:27 final size:27
Alignment explanation
Indices: 45838273--45838342 Score: 104
Period size: 27 Copynumber: 2.6 Consensus size: 27
45838263 TTTTGGTTAA
45838273 AAATTAACCGAATTAATCGAATTAACC
1 AAATTAACCGAATTAATCGAATTAACC
* * *
45838300 GAATTAACCGAATTACTCGAATTACCC
1 AAATTAACCGAATTAATCGAATTAACC
*
45838327 AAATTAACTGAATTAA
1 AAATTAACCGAATTAA
45838343 CCAAATTGAA
Statistics
Matches: 37, Mismatches: 6, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 37 1.00
ACGTcount: A:0.46, C:0.19, G:0.09, T:0.27
Consensus pattern (27 bp):
AAATTAACCGAATTAATCGAATTAACC
Found at i:45840821 original size:202 final size:202
Alignment explanation
Indices: 45840469--45840873 Score: 704
Period size: 202 Copynumber: 2.0 Consensus size: 202
45840459 GTTCCATTTG
*
45840469 AACTTACTTCCTTTTGAATGCTTACTCTTATTGTTTTCCCTATATGTAGATTTTAACCTTATGAA
1 AACTTACTTCCTTTTGAATGCTTACTCTGATTGTTTTCCCTATATGTAGATTTTAACCTTATGAA
45840534 ACTATCGAGCTGGATCAACGGAAGAGCACACACTATCACAAGATGGTAGTTATAAGTTCATTTTG
66 ACTATCGAGCTGGATCAACGGAAGAGCACACACTATCACAAGATGGTAGTTATAAGTTCATTTTG
*
45840599 AGTTTAGACTATGTGGCATGTACTTAGGTGTTTTGGGATTTGGTAGTCTCATGTTAATAATGATA
131 AGTTTAGACTATGTGGCATGTACTTAGGTGTTTTGCGATTTGGTAGTCTCATGTTAATAATGATA
45840664 ATGGTTT
196 ATGGTTT
* * * * *
45840671 AACTTGCTTCCTTTTGAATGCTTACTCTGGTTGTTTTCCTTATATGTAGATTTTAACCTTGTGGA
1 AACTTACTTCCTTTTGAATGCTTACTCTGATTGTTTTCCCTATATGTAGATTTTAACCTTATGAA
* * *
45840736 ACT-GCTGAGCTGGATCAGCGGAGGAGCACACACTATCACAAGATGGTAGTTATAAGTTCATTTT
66 ACTATC-GAGCTGGATCAACGGAAGAGCACACACTATCACAAGATGGTAGTTATAAGTTCATTTT
45840800 GAGTTTAGACTATGTGGCATGTACTTAGGTGTTTTGCGATTTGGTAGTCTCATGTTAATAATGAT
130 GAGTTTAGACTATGTGGCATGTACTTAGGTGTTTTGCGATTTGGTAGTCTCATGTTAATAATGAT
45840865 AATGGTTT
195 AATGGTTT
45840873 A
1 A
45840874 TTTGATTATA
Statistics
Matches: 192, Mismatches: 10, Indels: 2
0.94 0.05 0.01
Matches are distributed among these distances:
201 1 0.01
202 191 0.99
ACGTcount: A:0.26, C:0.14, G:0.21, T:0.39
Consensus pattern (202 bp):
AACTTACTTCCTTTTGAATGCTTACTCTGATTGTTTTCCCTATATGTAGATTTTAACCTTATGAA
ACTATCGAGCTGGATCAACGGAAGAGCACACACTATCACAAGATGGTAGTTATAAGTTCATTTTG
AGTTTAGACTATGTGGCATGTACTTAGGTGTTTTGCGATTTGGTAGTCTCATGTTAATAATGATA
ATGGTTT
Found at i:45842343 original size:22 final size:23
Alignment explanation
Indices: 45842299--45842351 Score: 74
Period size: 23 Copynumber: 2.3 Consensus size: 23
45842289 AGAATCCCAA
45842299 AAAATTTTCAAATAAAATATCAT
1 AAAATTTTCAAATAAAATATCAT
*
45842322 AAAATTATTTAAA-AAAAT-TCAT
1 AAAATT-TTCAAATAAAATATCAT
45842344 AAAATTTT
1 AAAATTTT
45842352 AATATTTTCT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
21 2 0.07
22 10 0.36
23 11 0.39
24 5 0.18
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.38
Consensus pattern (23 bp):
AAAATTTTCAAATAAAATATCAT
Found at i:45846052 original size:40 final size:40
Alignment explanation
Indices: 45845992--45846129 Score: 135
Period size: 40 Copynumber: 3.5 Consensus size: 40
45845982 AACGCACTAG
*
45845992 TTTGGCACCCAGTGCCTCATCGGATAATTCGAAGTAATAA
1 TTTGACACCCAGTGCCTCATCGGATAATTCGAAGTAATAA
* * *
45846032 TTTGACACCCAGTGTCTCATCGGCTAAAT-GAAGT-A-AA
1 TTTGACACCCAGTGCCTCATCGGATAATTCGAAGTAATAA
* * * *
45846069 -TTGGCACTCAATGCCTCATCGAAT-ATATCTGAAGTAATAA
1 TTTGACACCCAGTGCCTCATCGGATAAT-TC-GAAGTAATAA
*
45846109 TTTGACA-CCAGTGTCTCATCG
1 TTTGACACCCAGTGCCTCATCG
45846130 ACTCAAAGTC
Statistics
Matches: 77, Mismatches: 15, Indels: 12
0.74 0.14 0.12
Matches are distributed among these distances:
35 1 0.01
36 19 0.25
37 2 0.03
38 6 0.08
39 6 0.08
40 38 0.49
41 5 0.06
ACGTcount: A:0.30, C:0.22, G:0.18, T:0.29
Consensus pattern (40 bp):
TTTGACACCCAGTGCCTCATCGGATAATTCGAAGTAATAA
Found at i:45847030 original size:11 final size:11
Alignment explanation
Indices: 45847014--45847046 Score: 52
Period size: 10 Copynumber: 3.2 Consensus size: 11
45847004 CCCTTTCTCC
45847014 TTTTCTTTCCT
1 TTTTCTTTCCT
45847025 TTTTCTTT-CT
1 TTTTCTTTCCT
45847035 TTTT-TTTCCT
1 TTTTCTTTCCT
45847045 TT
1 TT
45847047 CTGTTTCGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
9 3 0.14
10 10 0.48
11 8 0.38
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (11 bp):
TTTTCTTTCCT
Found at i:45847053 original size:20 final size:20
Alignment explanation
Indices: 45847013--45847059 Score: 58
Period size: 20 Copynumber: 2.4 Consensus size: 20
45847003 GCCCTTTCTC
*
45847013 CTTTTCTTTCCTTTTTCTTT
1 CTTTTCTTTCCTTTCTCTTT
* *
45847033 CTTTTTTTTCCTTTCTGTTT
1 CTTTTCTTTCCTTTCTCTTT
*
45847053 CGTTTCT
1 CTTTTCT
45847060 ATCTTGTTTC
Statistics
Matches: 22, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.00, C:0.23, G:0.04, T:0.72
Consensus pattern (20 bp):
CTTTTCTTTCCTTTCTCTTT
Found at i:45847210 original size:43 final size:42
Alignment explanation
Indices: 45847114--45847210 Score: 106
Period size: 43 Copynumber: 2.3 Consensus size: 42
45847104 TATATTATAA
*
45847114 TATAATATATAATATATATATATATACTTAAACATTAAGTTT
1 TATAATATATAATATATATATATATACTTAAACATTAAATTT
* * ** *
45847156 TAATATTATATAATAT-TATAATATATATTTTTACTTTAAATTT
1 T-ATAATATATAATATATAT-ATATATACTTAAACATTAAATTT
45847199 TATAATAATATA
1 TATAAT-ATATA
45847211 CTTATGCCGC
Statistics
Matches: 45, Mismatches: 7, Indels: 5
0.79 0.12 0.09
Matches are distributed among these distances:
42 8 0.18
43 37 0.82
ACGTcount: A:0.46, C:0.03, G:0.01, T:0.49
Consensus pattern (42 bp):
TATAATATATAATATATATATATATACTTAAACATTAAATTT
Found at i:45861543 original size:18 final size:18
Alignment explanation
Indices: 45861517--45861559 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
45861507 GACTAGAAAA
* * *
45861517 AGGAAACATATAAGGGTT
1 AGGATACATAAAAGGGCT
45861535 AGGATACATAAAAGGGCT
1 AGGATACATAAAAGGGCT
45861553 AGGATAC
1 AGGATAC
45861560 GCACCTGGCA
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.44, C:0.09, G:0.28, T:0.19
Consensus pattern (18 bp):
AGGATACATAAAAGGGCT
Found at i:45863432 original size:22 final size:22
Alignment explanation
Indices: 45863390--45863432 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
45863380 TCTTTTAAAT
* *
45863390 AGAAATTTGAGAGGAATTTGAA
1 AGAAATTAGAGAGGAAATTGAA
45863412 AGAATATTAGAGA-GAAATTGA
1 AGAA-ATTAGAGAGGAAATTGA
45863433 GATAAAGGAT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.49, C:0.00, G:0.26, T:0.26
Consensus pattern (22 bp):
AGAAATTAGAGAGGAAATTGAA
Found at i:45866122 original size:81 final size:81
Alignment explanation
Indices: 45865949--45866171 Score: 326
Period size: 81 Copynumber: 2.8 Consensus size: 81
45865939 TTTTGAGCTT
** *
45865949 TCAGGGCTTTAGCGGCGTTTTTGAGAAAGC-ATGCTAATGCTCAGGGATTTAGCGGCGTTTTTGA
1 TCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGATTTAGCGGCGATTTTGA
*
45866013 GAAAGCATGCTAATGC
66 GAAAGCACGCTAATGC
**
45866029 TCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCA-GTCTTTAGCGGCGATTTTGA
1 TCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGATTTAGCGGCGATTTTGA
*
45866093 GAAAGCGCCGCTAATGC
66 GAAAGC-ACGCTAATGC
* * *
45866110 TCAGGGCCTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTTAGGGTTTTAGCGGC-ATTTT
1 TCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGATTTAGCGGCGATTTT
45866172 ACCGCTTTAA
Statistics
Matches: 129, Mismatches: 11, Indels: 5
0.89 0.08 0.03
Matches are distributed among these distances:
80 53 0.41
81 66 0.51
82 10 0.08
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (81 bp):
TCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGCTCAGGGATTTAGCGGCGATTTTGA
GAAAGCACGCTAATGC
Found at i:45866134 original size:41 final size:41
Alignment explanation
Indices: 45865949--45866171 Score: 326
Period size: 40 Copynumber: 5.5 Consensus size: 41
45865939 TTTTGAGCTT
**
45865949 TCAGGGCTTTAGCGGCGTTTTTGAGAAAGC-ATGCTAATGC
1 TCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGC
* **
45865989 TCAGGGATTTAGCGGCGTTTTTGAGAAAGC-ATGCTAATGC
1 TCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGC
45866029 TCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGC
1 TCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGC
* *
45866070 TCA-GTCTTTAGCGGCGATTTTGAGAAAGCGCCGCTAATGC
1 TCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGC
*
45866110 TCAGGGCCTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGC
1 TCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGC
* * *
45866151 TTAGGGTTTTAGCGGCATTTT
1 TCAGGGCTTTAGCGGCGTTTT
45866172 ACCGCTTTAA
Statistics
Matches: 168, Mismatches: 13, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
40 106 0.63
41 62 0.37
ACGTcount: A:0.21, C:0.19, G:0.30, T:0.30
Consensus pattern (41 bp):
TCAGGGCTTTAGCGGCGTTTTTGAGAAAGCGCCGCTAATGC
Done.