Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 33 of 333
Found at i:9201500 original size:35 final size:33
Alignment explanation
Indices: 9201438--9201520 Score: 96
Period size: 35 Copynumber: 2.5 Consensus size: 33
9201428 TACTTTGGGA
* *
9201438 TTCCTACTTCAATTTAGAATTGGATTATTCTCTCTT
1 TTCCTATTTCAA-TTAGAATTGAATTATT-T-TCTT
*
9201474 TTCCTATTTCAATTGGAATTGAATTATTTTCTT
1 TTCCTATTTCAATTAGAATTGAATTATTTTCTT
*
9201507 TT-CTCTTTCAATTA
1 TTCCTATTTCAATTA
9201521 CATGGGAATT
Statistics
Matches: 42, Mismatches: 5, Indels: 4
0.82 0.10 0.08
Matches are distributed among these distances:
32 10 0.24
33 6 0.14
34 1 0.02
35 14 0.33
36 11 0.26
ACGTcount: A:0.23, C:0.17, G:0.07, T:0.53
Consensus pattern (33 bp):
TTCCTATTTCAATTAGAATTGAATTATTTTCTT
Found at i:9201973 original size:12 final size:12
Alignment explanation
Indices: 9201958--9202000 Score: 50
Period size: 12 Copynumber: 3.3 Consensus size: 12
9201948 TCAACTATTA
9201958 TTATATTTCTATTT
1 TTATATTTCTA--T
9201972 ATTATATTTCTAT
1 -TTATATTTCTAT
*
9201985 TTATATTACTAT
1 TTATATTTCTAT
9201997 TTAT
1 TTAT
9202001 TGACATTGTT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
12 15 0.56
13 1 0.04
15 11 0.41
ACGTcount: A:0.28, C:0.07, G:0.00, T:0.65
Consensus pattern (12 bp):
TTATATTTCTAT
Found at i:9201973 original size:15 final size:15
Alignment explanation
Indices: 9201941--9201988 Score: 69
Period size: 15 Copynumber: 3.1 Consensus size: 15
9201931 ATTAATCTAT
*
9201941 TTATATTTCAACTATTA
1 TTATATTTCTA-T-TTA
9201958 TTATATTTCTATTTA
1 TTATATTTCTATTTA
9201973 TTATATTTCTATTTA
1 TTATATTTCTATTTA
9201988 T
1 T
9201989 ATTACTATTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
15 19 0.63
16 1 0.03
17 10 0.33
ACGTcount: A:0.29, C:0.08, G:0.00, T:0.62
Consensus pattern (15 bp):
TTATATTTCTATTTA
Found at i:9202066 original size:3 final size:3
Alignment explanation
Indices: 9202039--9202193 Score: 122
Period size: 3 Copynumber: 51.7 Consensus size: 3
9202029 TTTTTATTTT
* *
9202039 TTA TT- TTA CTA TTA TT- TATA TTTA TTA TTA TTA TTA TTA TTA CTA
1 TTA TTA TTA TTA TTA TTA T-TA -TTA TTA TTA TTA TTA TTA TTA TTA
* * * ** * *
9202084 TCA TTA TTA TTT TTA CTA TTA CAA TTA TTT TCTA TAA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA T-TA TTA TTA TTA TTA
*
9202130 TTA TTA TCT- TTA TTA TTA TTA TTA TTA TTA TT- TTCA TTA -TA GTA
1 TTA TTA T-TA TTA TTA TTA TTA TTA TTA TTA TTA TT-A TTA TTA TTA
* *
9202174 CTA TTA TTA TTA CTA TTA TT
1 TTA TTA TTA TTA TTA TTA TT
9202194 TTTGTTATCC
Statistics
Matches: 120, Mismatches: 22, Indels: 20
0.74 0.14 0.12
Matches are distributed among these distances:
2 8 0.07
3 104 0.87
4 7 0.06
5 1 0.01
ACGTcount: A:0.31, C:0.06, G:0.01, T:0.62
Consensus pattern (3 bp):
TTA
Found at i:9203558 original size:30 final size:30
Alignment explanation
Indices: 9203524--9203586 Score: 108
Period size: 30 Copynumber: 2.1 Consensus size: 30
9203514 ACTTATTTTA
9203524 TTGTTAATTTTGTTATTATTTTAAAGACAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
* *
9203554 TTGTTAATTTTGTTATTATTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGACAT
9203584 TTG
1 TTG
9203587 CTTGTTAAGT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.25, C:0.03, G:0.14, T:0.57
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGACAT
Found at i:9204835 original size:25 final size:25
Alignment explanation
Indices: 9204801--9204852 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
9204791 GTGGGGGAGA
9204801 ATATTTGGCCAAAAACTCTAACACC
1 ATATTTGGCCAAAAACTCTAACACC
9204826 ATATTTGGCCAAAAACTCTAACACC
1 ATATTTGGCCAAAAACTCTAACACC
9204851 AT
1 AT
9204853 TACTAAATAT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.40, C:0.27, G:0.08, T:0.25
Consensus pattern (25 bp):
ATATTTGGCCAAAAACTCTAACACC
Found at i:9205093 original size:36 final size:35
Alignment explanation
Indices: 9205021--9205094 Score: 87
Period size: 36 Copynumber: 2.1 Consensus size: 35
9205011 TTTATATTTT
9205021 ATTAAATTATATTTAGTAATAATTATATTAAAAATA
1 ATTAAATTATATTTAGTAAT-ATTATATTAAAAATA
* * *
9205057 ATTAAATTATTTATTATTAAT-TTATATTTAATAATA
1 ATTAAATTATAT-TTAGTAATATTATA-TTAAAAATA
9205093 AT
1 AT
9205095 CCTATTAAAA
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
35 5 0.15
36 21 0.64
37 7 0.21
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (35 bp):
ATTAAATTATATTTAGTAATATTATATTAAAAATA
Found at i:9205492 original size:29 final size:29
Alignment explanation
Indices: 9205459--9205528 Score: 97
Period size: 30 Copynumber: 2.3 Consensus size: 29
9205449 TTAGTCATGT
9205459 TATTT-GTTTGGTTTAAAAATTAAAATCTA
1 TATTTGGTTT-GTTTAAAAATTAAAATCTA
*
9205488 TATTTTGGTTTTTTTAAAAATTAAAATCTA
1 TA-TTTGGTTTGTTTAAAAATTAAAATCTA
9205518 TATTTTGGTTT
1 TA-TTTGGTTT
9205529 TTTTTGTATT
Statistics
Matches: 38, Mismatches: 1, Indels: 3
0.90 0.02 0.07
Matches are distributed among these distances:
29 2 0.05
30 32 0.84
31 4 0.11
ACGTcount: A:0.33, C:0.03, G:0.10, T:0.54
Consensus pattern (29 bp):
TATTTGGTTTGTTTAAAAATTAAAATCTA
Found at i:9205530 original size:29 final size:30
Alignment explanation
Indices: 9205470--9205532 Score: 126
Period size: 30 Copynumber: 2.1 Consensus size: 30
9205460 ATTTGTTTGG
9205470 TTTAAAAATTAAAATCTATATTTTGGTTTT
1 TTTAAAAATTAAAATCTATATTTTGGTTTT
9205500 TTTAAAAATTAAAATCTATATTTTGGTTTT
1 TTTAAAAATTAAAATCTATATTTTGGTTTT
9205530 TTT
1 TTT
9205533 TGTATTACTG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.35, C:0.03, G:0.06, T:0.56
Consensus pattern (30 bp):
TTTAAAAATTAAAATCTATATTTTGGTTTT
Found at i:9205914 original size:26 final size:26
Alignment explanation
Indices: 9205885--9205942 Score: 98
Period size: 26 Copynumber: 2.2 Consensus size: 26
9205875 TGATACAAAT
9205885 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
9205911 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
9205937 TGATAA
1 TGATAA
9205943 GAATTTCATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 30 1.00
ACGTcount: A:0.34, C:0.05, G:0.24, T:0.36
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:9209230 original size:5 final size:5
Alignment explanation
Indices: 9209216--9209255 Score: 62
Period size: 5 Copynumber: 7.6 Consensus size: 5
9209206 AGCTGTTGTG
9209216 AAAAT AAAAAT AAAAT AAAAT AAAAT AAAATT AAAAT AAA
1 AAAAT -AAAAT AAAAT AAAAT AAAAT AAAA-T AAAAT AAA
9209256 GAACACACAG
Statistics
Matches: 33, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
5 23 0.70
6 10 0.30
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:9209232 original size:11 final size:11
Alignment explanation
Indices: 9209216--9209255 Score: 64
Period size: 11 Copynumber: 3.7 Consensus size: 11
9209206 AGCTGTTGTG
9209216 AAAATAAAAAT
1 AAAATAAAAAT
9209227 AAAAT-AAAAT
1 AAAATAAAAAT
*
9209237 AAAATAAAATT
1 AAAATAAAAAT
9209248 AAAATAAA
1 AAAATAAA
9209256 GAACACACAG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
10 10 0.37
11 17 0.63
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (11 bp):
AAAATAAAAAT
Found at i:9209237 original size:16 final size:17
Alignment explanation
Indices: 9209216--9209255 Score: 66
Period size: 16 Copynumber: 2.5 Consensus size: 17
9209206 AGCTGTTGTG
9209216 AAAATAAAAATAAAA-T
1 AAAATAAAAATAAAATT
9209232 AAAAT-AAAATAAAATT
1 AAAATAAAAATAAAATT
9209248 AAAATAAA
1 AAAATAAA
9209256 GAACACACAG
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 9 0.41
16 11 0.50
17 2 0.09
ACGTcount: A:0.80, C:0.00, G:0.00, T:0.20
Consensus pattern (17 bp):
AAAATAAAAATAAAATT
Found at i:9209448 original size:24 final size:24
Alignment explanation
Indices: 9209404--9209455 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
9209394 AATCAAGGTC
* *
9209404 AAATATATTATGCTAATAAATGCT
1 AAATATATTATACTAATAAATACT
*
9209428 AAATATATTATACTCATAAATACT
1 AAATATATTATACTAATAAATACT
9209452 AAAT
1 AAAT
9209456 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.50, C:0.10, G:0.04, T:0.37
Consensus pattern (24 bp):
AAATATATTATACTAATAAATACT
Found at i:9213661 original size:15 final size:14
Alignment explanation
Indices: 9213620--9213661 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
9213610 CCAATTTTTG
9213620 AAAATAAAA-AAAT
1 AAAATAAAATAAAT
9213633 AAAATAAAATTAAATT
1 AAAATAAAA-TAAA-T
*
9213649 AAATTAAAATAAA
1 AAAATAAAATAAA
9213662 AAACACGCAG
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
13 9 0.36
15 7 0.28
16 9 0.36
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (14 bp):
AAAATAAAATAAAT
Found at i:9213851 original size:24 final size:24
Alignment explanation
Indices: 9213807--9213858 Score: 77
Period size: 24 Copynumber: 2.2 Consensus size: 24
9213797 AATTAAGGTC
* *
9213807 AAATATATTGTGCTAATAAATGCT
1 AAATATATTGTACTAATAAATACT
*
9213831 AAATATATTGTACTCATAAATACT
1 AAATATATTGTACTAATAAATACT
9213855 AAAT
1 AAAT
9213859 CTTCTAGAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.46, C:0.10, G:0.08, T:0.37
Consensus pattern (24 bp):
AAATATATTGTACTAATAAATACT
Found at i:9217147 original size:30 final size:30
Alignment explanation
Indices: 9217113--9217174 Score: 106
Period size: 30 Copynumber: 2.1 Consensus size: 30
9217103 TAAAATTTTA
**
9217113 AATTGAGTTCGGTTGGTAAAATATTCGACT
1 AATTGAGTTCGGTTACTAAAATATTCGACT
9217143 AATTGAGTTCGGTTACTAAAATATTCGACT
1 AATTGAGTTCGGTTACTAAAATATTCGACT
9217173 AA
1 AA
9217175 CCTAAAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.34, C:0.11, G:0.19, T:0.35
Consensus pattern (30 bp):
AATTGAGTTCGGTTACTAAAATATTCGACT
Found at i:9217487 original size:22 final size:23
Alignment explanation
Indices: 9217467--9217509 Score: 61
Period size: 22 Copynumber: 1.9 Consensus size: 23
9217457 AATTTATAAT
9217467 TTTTTATAATAAATTTAATAACA
1 TTTTTATAATAAATTTAATAACA
* *
9217490 TTTTTA-ATTTAATTTAATAA
1 TTTTTATAATAAATTTAATAA
9217510 ATTAATATAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 12 0.67
23 6 0.33
ACGTcount: A:0.44, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
TTTTTATAATAAATTTAATAACA
Found at i:9219625 original size:93 final size:93
Alignment explanation
Indices: 9219512--9219684 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
9219502 CGCCCATAAG
* *
9219512 TGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 TGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
*
9219577 ATGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
* *
9219605 TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 TGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
*
9219670 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
9219685 CAAATATCCT
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.23
Consensus pattern (93 bp):
TGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:9219680 original size:46 final size:46
Alignment explanation
Indices: 9219505--9219680 Score: 200
Period size: 46 Copynumber: 3.8 Consensus size: 46
9219495 TGTAACCCGC
* *
9219505 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCAT
* *
9219551 CCATAAGTGAACTCAGACTCAACTCAATGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGA---C-A-TTCGCAT
* *
9219601 CTC-T---TGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 C-CATAAGTGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCAT
*
9219644 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGA
9219681 TGCCCAAATA
Statistics
Matches: 110, Mismatches: 9, Indels: 22
0.78 0.06 0.16
Matches are distributed among these distances:
42 3 0.03
43 6 0.05
44 1 0.01
46 64 0.58
47 27 0.25
49 1 0.01
50 5 0.05
51 3 0.03
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.22
Consensus pattern (46 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGACATTCGCAT
Found at i:9222866 original size:52 final size:52
Alignment explanation
Indices: 9222807--9222908 Score: 204
Period size: 52 Copynumber: 2.0 Consensus size: 52
9222797 GGCTTTGGGT
9222807 TGTTGGGTTAGTATTTGGATTTGGGTCATTGGGCTTGTAAATTGACCGAAGC
1 TGTTGGGTTAGTATTTGGATTTGGGTCATTGGGCTTGTAAATTGACCGAAGC
9222859 TGTTGGGTTAGTATTTGGATTTGGGTCATTGGGCTTGTAAATTGACCGAA
1 TGTTGGGTTAGTATTTGGATTTGGGTCATTGGGCTTGTAAATTGACCGAA
9222909 CTTTTATTTG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.20, C:0.09, G:0.32, T:0.39
Consensus pattern (52 bp):
TGTTGGGTTAGTATTTGGATTTGGGTCATTGGGCTTGTAAATTGACCGAAGC
Found at i:9223824 original size:186 final size:185
Alignment explanation
Indices: 9223503--9224011 Score: 637
Period size: 186 Copynumber: 2.7 Consensus size: 185
9223493 GATACAAGAT
* * * *
9223503 TTGTAGCTTTATCTTGCTCTACTGCAACTTCAGGGAGATAAGATTTTCTATTGTAGCTTCATTCC
1 TTGTAGCTTTATCTTGCCCCACTGCAACTTCAGGGAGATAAGATTTGCTATTGTAGCTTTATTCC
* * * * *
9223568 AACCCACTGCAACTTTAGGAGG-ACT-GGATTCGTAACTTCATCTTGCTCCACTGTAATTTTAGG
66 AACCCACTGCAACTTTAGG-GGTA-TAGGATTTGTAGCTTCATCTTACTCCACTGCAACTTTA-G
* * *
9223631 GAGATAAGATCACTGCTTTATCAGTTTCACTGCAATTTTAAGAAAATCAAATTTAATG
128 GAGATAAGATCACTGCTTTATCAGTTTCACTGCAACTTCAAGAAAACCAAATTTAATG
* * * *
9223689 TTGTTGCTTTATCTTGCCCCACTACAACTTAAGGGAGATAAGATTCGCTATTGTAGCTTTATTCC
1 TTGTAGCTTTATCTTGCCCCACTGCAACTTCAGGGAGATAAGATTTGCTATTGTAGCTTTATTCC
* *
9223754 AACCCACTGCAGCTTTAGGGGTATAGGATTTGTAGCTTCATCTTACTCCACTACAACTTTAGGTA
66 AACCCACTGCAACTTTAGGGGTATAGGATTTGTAGCTTCATCTTACTCCACTGCAACTTTAGG-A
*** * * *
9223819 GATAAGATTGTTGCTTTATCCGTTTCATTGCAACTTCAAGAAAACCAGATTTAATG
130 GATAAGATCACTGCTTTATCAGTTTCACTGCAACTTCAAGAAAACCAAATTTAATG
* * * * *
9223875 TTGTAGCTTTATCTTGCCCCATTGCATCTTCAGGGAGATGAGATTTGCTACTGTAG-TTTCAATC
1 TTGTAGCTTTATCTTGCCCCACTGCAACTTCAGGGAGATAAGATTTGCTATTGTAGCTTT-ATTC
** * * *
9223939 CATTCCACTACAACTTTAGGGATATAGGATTTGTAGCTTCGTCTTACTCCACTGCAACTTTAGAG
65 CAACCCACTGCAACTTTAGGGGTATAGGATTTGTAGCTTCATCTTACTCCACTGCAACTTTAG-G
9224004 AGATAAGA
129 AGATAAGA
9224012 CTCGTCATTG
Statistics
Matches: 278, Mismatches: 40, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
185 8 0.03
186 269 0.97
187 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (185 bp):
TTGTAGCTTTATCTTGCCCCACTGCAACTTCAGGGAGATAAGATTTGCTATTGTAGCTTTATTCC
AACCCACTGCAACTTTAGGGGTATAGGATTTGTAGCTTCATCTTACTCCACTGCAACTTTAGGAG
ATAAGATCACTGCTTTATCAGTTTCACTGCAACTTCAAGAAAACCAAATTTAATG
Found at i:9226864 original size:46 final size:46
Alignment explanation
Indices: 9226797--9226971 Score: 180
Period size: 46 Copynumber: 3.8 Consensus size: 46
9226787 TGTAACCCGC
*
9226797 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
* *
9226843 CCATAAGTGAACTCAGACTCAACTCAATGAGCTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGG--G-C--GTTCGCAT
* * * * *
9226893 CTC-T---TGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCAT
1 C-CATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
*
9226936 CCATAAGTGAACTCAGACTCAACTCAACGAGTTCGG
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGG
9226972 ATGCCCAAAT
Statistics
Matches: 106, Mismatches: 12, Indels: 22
0.76 0.09 0.16
Matches are distributed among these distances:
42 3 0.03
43 5 0.05
44 1 0.01
46 61 0.58
47 25 0.24
48 1 0.01
49 1 0.01
50 5 0.05
51 4 0.04
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.23
Consensus pattern (46 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGGGCGTTCGCAT
Found at i:9226916 original size:93 final size:93
Alignment explanation
Indices: 9226804--9226976 Score: 292
Period size: 93 Copynumber: 1.9 Consensus size: 93
9226794 CGCCCATAAG
* *
9226804 TGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
*
9226869 ATGAGCTCGGATGCCTAGTTACATCTCT
66 ACGAGCTCGGATGCCTAGTTACATCTCT
* *
9226897 TGAACTCGGACTCAACTCAACGAGTTTGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
1 TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
*
9226962 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
9226977 CAAATATCCT
Statistics
Matches: 74, Mismatches: 6, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (93 bp):
TGAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCAGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCT
Found at i:9226991 original size:46 final size:44
Alignment explanation
Indices: 9226802--9226991 Score: 100
Period size: 46 Copynumber: 4.1 Consensus size: 44
9226792 CCCGCCCATA
* * ** ** **
9226802 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCAT
1 AGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCCAAATCC-T
* * *
9226847 AAGTGAACTCAGACTCAACTCAATGAGCTCGGATGCCTAGTTACATCTCT
1 -AGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCCA---A-ATC-CT
* * * *
9226897 --TGAACTCGGACTCAACTCAACGAGTTTGGACATTCGC--ATCCAT
1 AGTGAACTCAGACTCAACTCAACGAGTTCGG--ATGCCCAAATCC-T
9226940 AAGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCCAAATATCCT
1 -AGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCC-AA-ATCCT
9226987 AGTGA
1 AGTGA
9226992 CATGTCACTT
Statistics
Matches: 109, Mismatches: 20, Indels: 30
0.69 0.13 0.19
Matches are distributed among these distances:
42 1 0.01
43 4 0.04
44 4 0.04
46 62 0.57
47 26 0.24
48 4 0.04
49 3 0.03
50 4 0.04
51 1 0.01
ACGTcount: A:0.29, C:0.27, G:0.20, T:0.23
Consensus pattern (44 bp):
AGTGAACTCAGACTCAACTCAACGAGTTCGGATGCCCAAATCCT
Found at i:9230161 original size:52 final size:52
Alignment explanation
Indices: 9230102--9230203 Score: 204
Period size: 52 Copynumber: 2.0 Consensus size: 52
9230092 GGCTTTGGGT
9230102 TGTTGGGTTAGTATTTGGATTTGGGTCATTGGGCTTGTAAATTGACCGAAGC
1 TGTTGGGTTAGTATTTGGATTTGGGTCATTGGGCTTGTAAATTGACCGAAGC
9230154 TGTTGGGTTAGTATTTGGATTTGGGTCATTGGGCTTGTAAATTGACCGAA
1 TGTTGGGTTAGTATTTGGATTTGGGTCATTGGGCTTGTAAATTGACCGAA
9230204 CTTTTATTTG
Statistics
Matches: 50, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
52 50 1.00
ACGTcount: A:0.20, C:0.09, G:0.32, T:0.39
Consensus pattern (52 bp):
TGTTGGGTTAGTATTTGGATTTGGGTCATTGGGCTTGTAAATTGACCGAAGC
Found at i:9231119 original size:186 final size:185
Alignment explanation
Indices: 9230798--9231306 Score: 637
Period size: 186 Copynumber: 2.7 Consensus size: 185
9230788 GATACAAGAT
* * * *
9230798 TTGTAGCTTTATCTTGCTCTACTGCAACTTCAGGGAGATAAGATTTTCTATTGTAGCTTCATTCC
1 TTGTAGCTTTATCTTGCCCCACTGCAACTTCAGGGAGATAAGATTTGCTATTGTAGCTTTATTCC
* * * * *
9230863 AACCCACTGCAACTTTAGGAGG-ACT-GGATTCGTAACTTCATCTTGCTCCACTGTAATTTTAGG
66 AACCCACTGCAACTTTAGG-GGTA-TAGGATTTGTAGCTTCATCTTACTCCACTGCAACTTTA-G
* * *
9230926 GAGATAAGATCACTGCTTTATCAGTTTCACTGCAATTTTAAGAAAATCAAATTTAATG
128 GAGATAAGATCACTGCTTTATCAGTTTCACTGCAACTTCAAGAAAACCAAATTTAATG
* * * *
9230984 TTGTTGCTTTATCTTGCCCCACTACAACTTAAGGGAGATAAGATTCGCTATTGTAGCTTTATTCC
1 TTGTAGCTTTATCTTGCCCCACTGCAACTTCAGGGAGATAAGATTTGCTATTGTAGCTTTATTCC
* *
9231049 AACCCACTGCAGCTTTAGGGGTATAGGATTTGTAGCTTCATCTTACTCCACTACAACTTTAGGTA
66 AACCCACTGCAACTTTAGGGGTATAGGATTTGTAGCTTCATCTTACTCCACTGCAACTTTAGG-A
*** * * *
9231114 GATAAGATTGTTGCTTTATCCGTTTCATTGCAACTTCAAGAAAACCAGATTTAATG
130 GATAAGATCACTGCTTTATCAGTTTCACTGCAACTTCAAGAAAACCAAATTTAATG
* * * * *
9231170 TTGTAGCTTTATCTTGCCCCATTGCATCTTCAGGGAGATGAGATTTGCTACTGTAG-TTTCAATC
1 TTGTAGCTTTATCTTGCCCCACTGCAACTTCAGGGAGATAAGATTTGCTATTGTAGCTTT-ATTC
** * * *
9231234 CATTCCACTACAACTTTAGGGATATAGGATTTGTAGCTTCGTCTTACTCCACTGCAACTTTAGAG
65 CAACCCACTGCAACTTTAGGGGTATAGGATTTGTAGCTTCATCTTACTCCACTGCAACTTTAG-G
9231299 AGATAAGA
129 AGATAAGA
9231307 CTCGTCATTG
Statistics
Matches: 278, Mismatches: 40, Indels: 10
0.85 0.12 0.03
Matches are distributed among these distances:
185 8 0.03
186 269 0.97
187 1 0.00
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.36
Consensus pattern (185 bp):
TTGTAGCTTTATCTTGCCCCACTGCAACTTCAGGGAGATAAGATTTGCTATTGTAGCTTTATTCC
AACCCACTGCAACTTTAGGGGTATAGGATTTGTAGCTTCATCTTACTCCACTGCAACTTTAGGAG
ATAAGATCACTGCTTTATCAGTTTCACTGCAACTTCAAGAAAACCAAATTTAATG
Found at i:9238576 original size:18 final size:18
Alignment explanation
Indices: 9238550--9238584 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
9238540 ATAATGCAAT
9238550 ATATCATAAAAAATAATA
1 ATATCATAAAAAATAATA
*
9238568 ATATTATAAAAAATAAT
1 ATATCATAAAAAATAAT
9238585 GTCAATTAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.66, C:0.03, G:0.00, T:0.31
Consensus pattern (18 bp):
ATATCATAAAAAATAATA
Found at i:9253543 original size:7 final size:7
Alignment explanation
Indices: 9253531--9253555 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
9253521 AGTAGTCTCA
9253531 TATTTAG
1 TATTTAG
9253538 TATTTAG
1 TATTTAG
9253545 TATTTAG
1 TATTTAG
9253552 TATT
1 TATT
9253556 ATTTATATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.28, C:0.00, G:0.12, T:0.60
Consensus pattern (7 bp):
TATTTAG
Found at i:9254166 original size:18 final size:18
Alignment explanation
Indices: 9254143--9254185 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
9254133 ATCTAAGTGC
*
9254143 GTATCCTAGCTCTTATAT
1 GTATCCTAACTCTTATAT
9254161 GTATCCTAACTCTTATAT
1 GTATCCTAACTCTTATAT
*
9254179 GTTTCCT
1 GTATCCT
9254186 TTTCCTAGTC
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
18 23 1.00
ACGTcount: A:0.21, C:0.23, G:0.09, T:0.47
Consensus pattern (18 bp):
GTATCCTAACTCTTATAT
Found at i:9256601 original size:29 final size:30
Alignment explanation
Indices: 9256551--9256651 Score: 113
Period size: 29 Copynumber: 3.5 Consensus size: 30
9256541 CATACATGTA
* * *
9256551 GCCCA-CTAGGCCTAA-TCTTATTCAAATG
1 GCCCATCTAGGCCCAATTCATATTCATATG
* *
9256579 GCCCATCTA-GCCCAGTTCATATTCTTATG
1 GCCCATCTAGGCCCAATTCATATTCATATG
*
9256608 GCCCA-CTAGGCCCAATTCACATTCATATG
1 GCCCATCTAGGCCCAATTCATATTCATATG
9256637 GCCCAT-TAGGCCCAA
1 GCCCATCTAGGCCCAA
9256652 ATCGTATTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
28 12 0.20
29 49 0.80
ACGTcount: A:0.26, C:0.33, G:0.15, T:0.27
Consensus pattern (30 bp):
GCCCATCTAGGCCCAATTCATATTCATATG
Found at i:9260441 original size:124 final size:126
Alignment explanation
Indices: 9260203--9260587 Score: 505
Period size: 125 Copynumber: 3.1 Consensus size: 126
9260193 TATGAGCTAC
* *
9260203 TGTAGAAAAAGAGCG-TCGACGTAGGAGCTTTTTTCA-TCAATTTTGCTGATAGTACATCCTGCT
1 TGTAGAAAAAGAGCGTTC-ACGTAGGAGCTTTTTTCAGT-AATTTTGCTGACAGTGCATCCTGCT
*
9260266 TGAAGCGTTTTTGACACTATTT-TTCAGAACTA-TCTTCTCAAAATTATTTTTT-AGGAACTAA
64 TGAAGCGTTTTTGACACTATTTGTTCAGAA-AAGTCTTCTCAAAATTATTTTTTCAGGAACTAA
* * *
9260327 TGTAGAAAAAGAACGTTCACGTGGGAGCTTTTTTCAGTAATTTCGCTGACAGTGCATCCTGCTTG
1 TGTAGAAAAAGAGCGTTCACGTAGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGCTTG
* *
9260392 AAGCGTTTTTGACACTATTTGTTTAGAAAAGTCTTCTCAAAATTA-TTTTTCAGGAACTAT
66 AAGCGTTTTTGACACTATTTGTTCAGAAAAGTCTTCTCAAAATTATTTTTTCAGGAACTAA
* * *** * *
9260452 TGTAGAAAAAGAGCATCCTTATAGGATCTTTTTTCAGTAATTTTGCTGGCAGTGCATCCTGCTTG
1 TGTAGAAAAAGAGCGTTCACGTAGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGCTTG
* ** * *
9260517 AAGCGTTTTTCACACTATTTGTTCAGAACTG-CATTCTCCAAATTATTTTTTCAGGAACTAC
66 AAGCGTTTTTGACACTATTTGTTCAGAAAAGTC-TTCTCAAAATTATTTTTTCAGGAACTAA
9260578 TGTAGAAAAA
1 TGTAGAAAAA
9260588 AACAAAATCC
Statistics
Matches: 230, Mismatches: 24, Indels: 12
0.86 0.09 0.05
Matches are distributed among these distances:
124 82 0.36
125 124 0.54
126 24 0.10
ACGTcount: A:0.29, C:0.17, G:0.18, T:0.37
Consensus pattern (126 bp):
TGTAGAAAAAGAGCGTTCACGTAGGAGCTTTTTTCAGTAATTTTGCTGACAGTGCATCCTGCTTG
AAGCGTTTTTGACACTATTTGTTCAGAAAAGTCTTCTCAAAATTATTTTTTCAGGAACTAA
Found at i:9260779 original size:15 final size:15
Alignment explanation
Indices: 9260759--9260797 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 15
9260749 TTATTTTAAC
* *
9260759 AAAACCCTAACCCTA
1 AAAACCCTAAACCAA
*
9260774 AAAACCATAAACCAA
1 AAAACCCTAAACCAA
9260789 AAAACCCTA
1 AAAACCCTA
9260798 GGGATTAAAC
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.56, C:0.33, G:0.00, T:0.10
Consensus pattern (15 bp):
AAAACCCTAAACCAA
Found at i:9262777 original size:13 final size:13
Alignment explanation
Indices: 9262759--9262783 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9262749 GGTTTGTTTA
9262759 TTAAACTAATTAT
1 TTAAACTAATTAT
9262772 TTAAACTAATTA
1 TTAAACTAATTA
9262784 ACTGATTTAA
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTAAACTAATTAT
Found at i:9271019 original size:13 final size:13
Alignment explanation
Indices: 9271001--9271025 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
9270991 GGTTTGTTTA
9271001 TTAAACTAATTAT
1 TTAAACTAATTAT
9271014 TTAAACTAATTA
1 TTAAACTAATTA
9271026 ACTGATTTAA
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:0.48, C:0.08, G:0.00, T:0.44
Consensus pattern (13 bp):
TTAAACTAATTAT
Found at i:9282464 original size:15 final size:15
Alignment explanation
Indices: 9282438--9282494 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
9282428 CATATATATT
9282438 ATATAA-TTCAATCA
1 ATATAATTTCAATCA
9282452 ATATAATTTCAATCA
1 ATATAATTTCAATCA
*
9282467 AAATAATTTCAATCA
1 ATATAATTTCAATCA
*
9282482 ATATAAATTCAAT
1 ATATAATTTCAAT
9282495 AAATTCATCG
Statistics
Matches: 39, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
14 6 0.15
15 33 0.85
ACGTcount: A:0.51, C:0.12, G:0.00, T:0.37
Consensus pattern (15 bp):
ATATAATTTCAATCA
Found at i:9283754 original size:20 final size:21
Alignment explanation
Indices: 9283719--9283758 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 21
9283709 TTGCTCTCTG
*
9283719 TTTCGTTTCATTCTGTTTCTA
1 TTTCCTTTCATTCTGTTTCTA
9283740 TTTCCTTTC-TTCTGTTTCT
1 TTTCCTTTCATTCTGTTTCT
9283759 TTAGTTTATA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
20 10 0.56
21 8 0.44
ACGTcount: A:0.05, C:0.23, G:0.07, T:0.65
Consensus pattern (21 bp):
TTTCCTTTCATTCTGTTTCTA
Found at i:9283778 original size:5 final size:5
Alignment explanation
Indices: 9283765--9283796 Score: 55
Period size: 5 Copynumber: 6.2 Consensus size: 5
9283755 TTCTTTAGTT
9283765 TATATA TATAA TATAA TATAA TATAA TATAA T
1 TATA-A TATAA TATAA TATAA TATAA TATAA T
9283797 TAAAACATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 22 0.85
6 4 0.15
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (5 bp):
TATAA
Found at i:9283790 original size:15 final size:16
Alignment explanation
Indices: 9283765--9283863 Score: 79
Period size: 16 Copynumber: 6.5 Consensus size: 16
9283755 TTCTTTAGTT
9283765 TATATATATAATATAA
1 TATATATATAATATAA
9283781 TATA-ATATAATATAA
1 TATATATATAATATAA
*
9283796 T-TA-A-A-ACATAAAA
1 TATATATATA-ATATAA
* * *
9283809 TATCTTTATTATATAA
1 TATATATATAATATAA
9283825 TA-ATATAATAATATAA
1 TATATAT-ATAATATAA
9283841 TA-ATATAATAATATAA
1 TATATAT-ATAATATAA
9283857 TA-ATATA
1 TATATATA
9283864 CTAAACATAA
Statistics
Matches: 69, Mismatches: 8, Indels: 13
0.77 0.09 0.14
Matches are distributed among these distances:
12 1 0.01
13 7 0.10
14 4 0.06
15 15 0.22
16 42 0.61
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (16 bp):
TATATATATAATATAA
Found at i:9283827 original size:3 final size:3
Alignment explanation
Indices: 9283821--9283861 Score: 54
Period size: 3 Copynumber: 15.0 Consensus size: 3
9283811 TCTTTATTAT
9283821 ATA ATA AT- ATA ATA AT- ATA ATA AT- ATA ATA AT- ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
9283862 TACTAAACAT
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
2 8 0.24
3 26 0.76
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
ATA
Found at i:9283832 original size:8 final size:8
Alignment explanation
Indices: 9283819--9283863 Score: 90
Period size: 8 Copynumber: 5.6 Consensus size: 8
9283809 TATCTTTATT
9283819 ATATAATA
1 ATATAATA
9283827 ATATAATA
1 ATATAATA
9283835 ATATAATA
1 ATATAATA
9283843 ATATAATA
1 ATATAATA
9283851 ATATAATA
1 ATATAATA
9283859 ATATA
1 ATATA
9283864 CTAAACATAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 37 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAATA
Found at i:9293532 original size:13 final size:14
Alignment explanation
Indices: 9293507--9293535 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
9293497 TATTTATATT
9293507 TATATATACATAAA
1 TATATATACATAAA
9293521 TATATA-ACATAAA
1 TATATATACATAAA
9293534 TA
1 TA
9293536 AAAAAAATAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (14 bp):
TATATATACATAAA
Found at i:9293576 original size:21 final size:21
Alignment explanation
Indices: 9293518--9293560 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
9293508 ATATATACAT
*
9293518 AAATATATAACATAAATAAAAA
1 AAATATATAA-AAAAATAAAAA
9293540 AAATATATAAAAAAATAAAAA
1 AAATATATAAAAAAATAAAAA
9293561 GAAAATTTTA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.77, C:0.02, G:0.00, T:0.21
Consensus pattern (21 bp):
AAATATATAAAAAAATAAAAA
Found at i:9294071 original size:40 final size:40
Alignment explanation
Indices: 9294016--9294094 Score: 149
Period size: 40 Copynumber: 2.0 Consensus size: 40
9294006 GTCCTCCTAA
*
9294016 GGTGTGCGCACGTTACATTTCGGTCCTTTTTCTTTGTTTG
1 GGTGTGCGCACGTTACATTTCGGTCCTTTTTCTCTGTTTG
9294056 GGTGTGCGCACGTTACATTTCGGTCCTTTTTCTCTGTTT
1 GGTGTGCGCACGTTACATTTCGGTCCTTTTTCTCTGTTT
9294095 CTTTTTTAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 38 1.00
ACGTcount: A:0.08, C:0.22, G:0.24, T:0.47
Consensus pattern (40 bp):
GGTGTGCGCACGTTACATTTCGGTCCTTTTTCTCTGTTTG
Found at i:9294891 original size:21 final size:21
Alignment explanation
Indices: 9294866--9294906 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
9294856 TGTTTATATA
* *
9294866 TTATATTTTTTCTTTTCACTT
1 TTATATTTATTATTTTCACTT
9294887 TTATATTTATTATTTTCACT
1 TTATATTTATTATTTTCACT
9294907 ATATTTATTC
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.20, C:0.12, G:0.00, T:0.68
Consensus pattern (21 bp):
TTATATTTATTATTTTCACTT
Found at i:9304318 original size:23 final size:24
Alignment explanation
Indices: 9304287--9304333 Score: 78
Period size: 23 Copynumber: 2.0 Consensus size: 24
9304277 TTTGAAATGC
*
9304287 TTTATAATATATATTTTTTAAAAT
1 TTTATAATATATATTTTTGAAAAT
9304311 TTTA-AATATATATTTTTGAAAAT
1 TTTATAATATATATTTTTGAAAAT
9304334 ATTTTTTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
23 18 0.82
24 4 0.18
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (24 bp):
TTTATAATATATATTTTTGAAAAT
Found at i:9304359 original size:34 final size:35
Alignment explanation
Indices: 9304297--9304381 Score: 127
Period size: 34 Copynumber: 2.5 Consensus size: 35
9304287 TTTATAATAT
9304297 ATATTTTTTAAAATTTTAAATATATATTTTTGAAA
1 ATATTTTTTAAAATTTTAAATATATATTTTTGAAA
* *
9304332 ATATTTTTTAAACTTTTAAATAT-TATTTTTTAAA
1 ATATTTTTTAAAATTTTAAATATATATTTTTGAAA
* *
9304366 TTATTTTTAAAAATTT
1 ATATTTTTTAAAATTT
9304382 AGGGTTTAGG
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
34 23 0.51
35 22 0.49
ACGTcount: A:0.40, C:0.01, G:0.01, T:0.58
Consensus pattern (35 bp):
ATATTTTTTAAAATTTTAAATATATATTTTTGAAA
Found at i:9304467 original size:20 final size:22
Alignment explanation
Indices: 9304432--9304489 Score: 66
Period size: 20 Copynumber: 2.6 Consensus size: 22
9304422 TTTAAAAAAT
*
9304432 AATTTCAAATATATATATTTTA
1 AATTTCAAATATATATATTATA
9304454 AATTT-AAA-ATATATATTATAAA
1 AATTTCAAATATATATATTAT--A
9304476 ACATTTCAAATATA
1 A-ATTTCAAATATA
9304490 CATTTCTATT
Statistics
Matches: 30, Mismatches: 1, Indels: 7
0.79 0.03 0.18
Matches are distributed among these distances:
20 10 0.33
21 3 0.10
22 7 0.23
23 4 0.13
24 3 0.10
25 3 0.10
ACGTcount: A:0.52, C:0.05, G:0.00, T:0.43
Consensus pattern (22 bp):
AATTTCAAATATATATATTATA
Found at i:9304535 original size:13 final size:14
Alignment explanation
Indices: 9304506--9304538 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
9304496 TATTTTTTTA
*
9304506 AAATTAATAATAAT
1 AAATAAATAATAAT
9304520 AAATAAATAA-AAT
1 AAATAAATAATAAT
9304533 AAATAA
1 AAATAA
9304539 GGATAAAGAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
13 9 0.50
14 9 0.50
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
AAATAAATAATAAT
Found at i:9305529 original size:10 final size:10
Alignment explanation
Indices: 9305514--9305545 Score: 64
Period size: 10 Copynumber: 3.2 Consensus size: 10
9305504 TAATTTATGG
9305514 TACAAATTGA
1 TACAAATTGA
9305524 TACAAATTGA
1 TACAAATTGA
9305534 TACAAATTGA
1 TACAAATTGA
9305544 TA
1 TA
9305546 ATAGGTTAGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 22 1.00
ACGTcount: A:0.50, C:0.09, G:0.09, T:0.31
Consensus pattern (10 bp):
TACAAATTGA
Found at i:9305578 original size:26 final size:26
Alignment explanation
Indices: 9305541--9305624 Score: 150
Period size: 26 Copynumber: 3.2 Consensus size: 26
9305531 TGATACAAAT
* *
9305541 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTTCA
9305567 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
9305593 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATGGGTTAGGTAAATGTTTCA
9305619 TGATAA
1 TGATAA
9305625 GAATTTCATG
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.33, C:0.05, G:0.25, T:0.37
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTTCA
Found at i:9307140 original size:26 final size:26
Alignment explanation
Indices: 9307111--9307163 Score: 72
Period size: 26 Copynumber: 2.0 Consensus size: 26
9307101 TTTACAGTTT
9307111 TACCCCTAGGAGATAAATT-ACCGAAA
1 TACCCCTAGG-GATAAATTGACCGAAA
* *
9307137 TACCCCTAGGGTTAAATTGACCTAAA
1 TACCCCTAGGGATAAATTGACCGAAA
9307163 T
1 T
9307164 GCATGTTTGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
25 7 0.29
26 17 0.71
ACGTcount: A:0.38, C:0.23, G:0.15, T:0.25
Consensus pattern (26 bp):
TACCCCTAGGGATAAATTGACCGAAA
Found at i:9307659 original size:137 final size:137
Alignment explanation
Indices: 9307413--9307834 Score: 781
Period size: 137 Copynumber: 3.1 Consensus size: 137
9307403 GTAGTCTCCT
*
9307413 CAAATGGGCTTGCATATGTTTACTGATGTTGCATTTATTTTGAAATGGGCCTATGGGCCATACTG
1 CAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTG
* *
9307478 TTATCTGAATAAGGGGCGAAGGCCCGGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCAC
66 TTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCAC
9307543 TGTTACC
131 TGTTACC
9307550 CAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTG
1 CAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTG
*
9307615 TTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAATGGCTCTGGCCCAGTACCAC
66 TTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCAC
9307680 TGTTACC
131 TGTTACC
9307687 CAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTG
1 CAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTG
*
9307752 TTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTCAAAAGGGCTCTGGCCCAGTACCAC
66 TTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCAC
9307817 TGTTACC
131 TGTTACC
**
9307824 TGAATGGGCTT
1 CAAATGGGCTT
9307835 AGGCCCAATA
Statistics
Matches: 277, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
137 277 1.00
ACGTcount: A:0.24, C:0.19, G:0.25, T:0.32
Consensus pattern (137 bp):
CAAATGGGCTTGCATATGTTTACTGATGTTGCATGTATTTTGAAATGGGCCTATGGGCCATACTG
TTATCTGAATAAGGGGCTAAGGCCCAGTTTATTGTAATCTGAAAAGGGCTCTGGCCCAGTACCAC
TGTTACC
Found at i:9316851 original size:16 final size:18
Alignment explanation
Indices: 9316812--9316845 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
9316802 TAAGTTTATA
9316812 ATATTT-TATATTATGTT
1 ATATTTATATATTATGTT
*
9316829 ATTTTTATATATTATGT
1 ATATTTATATATTATGT
9316846 AATTTAGAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 5 0.33
18 10 0.67
ACGTcount: A:0.29, C:0.00, G:0.06, T:0.65
Consensus pattern (18 bp):
ATATTTATATATTATGTT
Found at i:9317512 original size:36 final size:38
Alignment explanation
Indices: 9317456--9317526 Score: 119
Period size: 36 Copynumber: 1.9 Consensus size: 38
9317446 CAAATATCCA
*
9317456 ATTTTATGTTATTTATTTTATGATTTGAT-ATTTTCTC
1 ATTTTATGTTATTTACTTTATGATTTGATAATTTTCTC
9317493 ATTTTAT-TTATTTACTTTATGATTTGATAATTTT
1 ATTTTATGTTATTTACTTTATGATTTGATAATTTT
9317527 TAATTTTTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
36 20 0.62
37 12 0.38
ACGTcount: A:0.24, C:0.04, G:0.07, T:0.65
Consensus pattern (38 bp):
ATTTTATGTTATTTACTTTATGATTTGATAATTTTCTC
Found at i:9317533 original size:36 final size:37
Alignment explanation
Indices: 9317455--9317533 Score: 117
Period size: 36 Copynumber: 2.2 Consensus size: 37
9317445 ACAAATATCC
*
9317455 AATTTTATGTTATTTATTTTATGATTTGATATTTTCT
1 AATTTTATGTTATTTACTTTATGATTTGATATTTTCT
*
9317492 CATTTTAT-TTATTTACTTTATGATTTGATAATTTT-T
1 AATTTTATGTTATTTACTTTATGATTTGAT-ATTTTCT
9317528 AATTTT
1 AATTTT
9317534 TATTAATTGT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
36 26 0.68
37 12 0.32
ACGTcount: A:0.25, C:0.04, G:0.06, T:0.65
Consensus pattern (37 bp):
AATTTTATGTTATTTACTTTATGATTTGATATTTTCT
Found at i:9318357 original size:5 final size:5
Alignment explanation
Indices: 9318349--9318386 Score: 67
Period size: 5 Copynumber: 7.6 Consensus size: 5
9318339 AAAGAATAGA
*
9318349 ATTAT ATTAT ATAAT ATTAT ATTAT ATTAT ATTAT ATT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT ATT
9318387 TAAACTTTTT
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
5 31 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (5 bp):
ATTAT
Found at i:9320391 original size:30 final size:30
Alignment explanation
Indices: 9320357--9320421 Score: 112
Period size: 30 Copynumber: 2.2 Consensus size: 30
9320347 ACTTATTTTA
9320357 TTGTTAATTTTGTTATTATTTTAAAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
* *
9320387 TTGTTAATTTTGTTATTTTTTTAGAGGCAT
1 TTGTTAATTTTGTTATTATTTTAAAGGCAT
9320417 TTGTT
1 TTGTT
9320422 TGTTAAGTTG
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
30 33 1.00
ACGTcount: A:0.22, C:0.03, G:0.15, T:0.60
Consensus pattern (30 bp):
TTGTTAATTTTGTTATTATTTTAAAGGCAT
Found at i:9320555 original size:11 final size:11
Alignment explanation
Indices: 9320539--9320569 Score: 62
Period size: 11 Copynumber: 2.8 Consensus size: 11
9320529 ATTATATATT
9320539 TAAAAATTATA
1 TAAAAATTATA
9320550 TAAAAATTATA
1 TAAAAATTATA
9320561 TAAAAATTA
1 TAAAAATTA
9320570 ATATGGGTGG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 20 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (11 bp):
TAAAAATTATA
Found at i:9320722 original size:14 final size:14
Alignment explanation
Indices: 9320703--9320729 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
9320693 TTTTACTGTT
9320703 TTATTGTTATTTTC
1 TTATTGTTATTTTC
9320717 TTATTGTTATTTT
1 TTATTGTTATTTT
9320730 TTTTCACTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.04, G:0.07, T:0.74
Consensus pattern (14 bp):
TTATTGTTATTTTC
Found at i:9320769 original size:22 final size:22
Alignment explanation
Indices: 9320741--9320783 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
9320731 TTTCACTATT
9320741 TTGTTACCATTTCACTATTATA
1 TTGTTACCATTTCACTATTATA
* * *
9320763 TTGTTACTATTTTATTATTAT
1 TTGTTACCATTTCACTATTAT
9320784 TGTTTGGATA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.26, C:0.12, G:0.05, T:0.58
Consensus pattern (22 bp):
TTGTTACCATTTCACTATTATA
Found at i:9320952 original size:18 final size:18
Alignment explanation
Indices: 9320931--9320972 Score: 50
Period size: 18 Copynumber: 2.3 Consensus size: 18
9320921 GAAACATTTA
*
9320931 TTTTAATGT-TTTTAGTAT
1 TTTTAATGTATTATA-TAT
*
9320949 TTTTGATGTATTATATAT
1 TTTTAATGTATTATATAT
9320967 TTTTAA
1 TTTTAA
9320973 AAAATATATA
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
18 16 0.80
19 4 0.20
ACGTcount: A:0.26, C:0.00, G:0.10, T:0.64
Consensus pattern (18 bp):
TTTTAATGTATTATATAT
Found at i:9320997 original size:14 final size:14
Alignment explanation
Indices: 9320971--9321004 Score: 52
Period size: 14 Copynumber: 2.4 Consensus size: 14
9320961 ATATATTTTT
9320971 AAAAAATATATATA
1 AAAAAATATATATA
9320985 AAAATAATA-ATATA
1 AAAA-AATATATATA
9320999 AAAAAA
1 AAAAAA
9321005 ATTAATACAA
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
13 2 0.11
14 13 0.68
15 4 0.21
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (14 bp):
AAAAAATATATATA
Found at i:9321010 original size:15 final size:14
Alignment explanation
Indices: 9320971--9321011 Score: 55
Period size: 15 Copynumber: 2.8 Consensus size: 14
9320961 ATATATTTTT
9320971 AAAAAATATATATAA
1 AAAAAATA-ATATAA
*
9320986 AAATAATAATATAA
1 AAAAAATAATATAA
9321000 AAAAAATTAATA
1 AAAAAA-TAATA
9321012 CAATAGGGCC
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
14 11 0.48
15 12 0.52
ACGTcount: A:0.73, C:0.00, G:0.00, T:0.27
Consensus pattern (14 bp):
AAAAAATAATATAA
Found at i:9331061 original size:10 final size:10
Alignment explanation
Indices: 9331038--9331067 Score: 51
Period size: 10 Copynumber: 2.9 Consensus size: 10
9331028 GTCACCAATG
9331038 CTTGCAAGATC
1 CTTGCAA-ATC
9331049 CTTGCAAATC
1 CTTGCAAATC
9331059 CTTGCAAAT
1 CTTGCAAAT
9331068 TCAGCTGAAG
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 12 0.63
11 7 0.37
ACGTcount: A:0.30, C:0.27, G:0.13, T:0.30
Consensus pattern (10 bp):
CTTGCAAATC
Found at i:9340074 original size:17 final size:17
Alignment explanation
Indices: 9340049--9340082 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
9340039 ATAATTTTAA
* *
9340049 ATTTTATTAGATCATAT
1 ATTTAATTAAATCATAT
9340066 ATTTAATTAAATCATAT
1 ATTTAATTAAATCATAT
9340083 TAGTTATAAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.41, C:0.06, G:0.03, T:0.50
Consensus pattern (17 bp):
ATTTAATTAAATCATAT
Found at i:9340156 original size:54 final size:54
Alignment explanation
Indices: 9340098--9340276 Score: 137
Period size: 54 Copynumber: 3.1 Consensus size: 54
9340088 ATAATCATAT
9340098 ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
1 ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
* * * * * * * *
9340152 ATTATATATTTTAATTATATT-ATATTTAATAATAATTATGTTATTTTA-TATTTTACAGTATCA
1 ATTAT-GA-TTTGAGTAAATTCATA--TAAGAAT-ATTA-ATTA-TTAAGAATTTT--A-T-T-A
9340215 TA
54 -A
*
9340217 TATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
1 -ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
9340272 ATTAT
1 ATTAT
9340277 ATATTTTAAT
Statistics
Matches: 92, Mismatches: 17, Indels: 32
0.65 0.12 0.23
Matches are distributed among these distances:
54 10 0.11
55 5 0.05
56 10 0.11
57 7 0.08
58 5 0.05
59 9 0.10
60 6 0.07
61 9 0.10
62 5 0.05
63 7 0.08
64 10 0.11
65 4 0.04
66 5 0.05
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.49
Consensus pattern (54 bp):
ATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAA
Found at i:9340159 original size:61 final size:61
Alignment explanation
Indices: 9340094--9340281 Score: 190
Period size: 61 Copynumber: 3.1 Consensus size: 61
9340084 AGTTATAATC
9340094 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
* * * * * * * * * * *
9340155 ATATATTTTAATTAT-ATTATATTTA-ATAATAATTATGTTATT-TT-A-TATTTTA-CAGTATC
1 ATATATTATGATT-TGAGTAAATTCATATAAGAA-TAT-TAATTATTAAGAATTTTATTA-AATT
*
9340214 ATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
1 ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
9340275 ATATATT
1 ATATATT
9340282 TTAATTAAAA
Statistics
Matches: 94, Mismatches: 23, Indels: 20
0.69 0.17 0.15
Matches are distributed among these distances:
58 6 0.06
59 30 0.32
60 14 0.15
61 38 0.40
62 6 0.06
ACGTcount: A:0.41, C:0.02, G:0.07, T:0.49
Consensus pattern (61 bp):
ATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATT
Found at i:9340173 original size:18 final size:17
Alignment explanation
Indices: 9340142--9340176 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
9340132 ATTATTAAGA
9340142 ATTTTATTAAATTATAT
1 ATTTTATTAAATTATAT
*
9340159 ATTTTAATTATATTATAT
1 ATTTT-ATTAAATTATAT
9340177 TTAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (17 bp):
ATTTTATTAAATTATAT
Found at i:9340215 original size:120 final size:120
Alignment explanation
Indices: 9340091--9340313 Score: 410
Period size: 120 Copynumber: 1.9 Consensus size: 120
9340081 ATTAGTTATA
9340091 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
1 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
* *
9340156 TATATTTTAATTATATTATATTTAATAATAATTATGTTATTTTATATTTTACAGT
66 TATATTTTAATTAAAATATATTTAATAATAATTATGTTATTTTATATTTTACAGT
*
9340211 ATCATATATTATGGTTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
1 ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
*
9340276 TATATTTTAATTAAAATATATTTAATAATTATTATGTT
66 TATATTTTAATTAAAATATATTTAATAATAATTATGTT
9340314 TAAATATGAT
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
120 99 1.00
ACGTcount: A:0.42, C:0.02, G:0.06, T:0.50
Consensus pattern (120 bp):
ATCATATATTATGATTTGAGTAAATTCATATAAGAATATTAATTATTAAGAATTTTATTAAATTA
TATATTTTAATTAAAATATATTTAATAATAATTATGTTATTTTATATTTTACAGT
Found at i:9340290 original size:18 final size:17
Alignment explanation
Indices: 9340262--9340296 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
9340252 ATTATTAAGA
*
9340262 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
9340279 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
9340297 TTAATAATTA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:9340418 original size:144 final size:147
Alignment explanation
Indices: 9340250--9340521 Score: 478
Period size: 144 Copynumber: 1.9 Consensus size: 147
9340240 ATAAGAATAT
* *
9340250 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTTAATAATTATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
9340315 AAATATGATTAAATTATTTATTATTGAT-AT-TAATCTTATTAAAATTTAAATAA-AATAATTTA
66 AAATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAATTTA
9340377 CCAAAACAAATTTCTGC
131 CCAAAACAAATTTCTGC
9340394 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
1 TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
*
9340459 AAATATGATTAAATTATTTATTTTTGATAATAAATAATCTTATTAAAATTTAAATAACAATAA
66 AAATATGATTAAATTATTTATTATTGATAAT--ATAATCTTATTAAAATTTAAATAACAATAA
9340522 CAATAATCAT
Statistics
Matches: 120, Mismatches: 3, Indels: 5
0.94 0.02 0.04
Matches are distributed among these distances:
144 90 0.75
145 2 0.02
148 23 0.19
149 5 0.04
ACGTcount: A:0.47, C:0.03, G:0.03, T:0.47
Consensus pattern (147 bp):
TAATTATTAAGAATTTTATTAAATTATATATTTTAATTAAAATATATTAAATAATAATTATGTTT
AAATATGATTAAATTATTTATTATTGATAATATAATCTTATTAAAATTTAAATAACAATAATTTA
CCAAAACAAATTTCTGC
Found at i:9340434 original size:18 final size:17
Alignment explanation
Indices: 9340406--9340440 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
9340396 ATTATTAAGA
*
9340406 ATTTTATTAAATTATAT
1 ATTTTATTAAAATATAT
9340423 ATTTTAATTAAAATATAT
1 ATTTT-ATTAAAATATAT
9340441 TAAATAATAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
ATTTTATTAAAATATAT
Found at i:9340651 original size:44 final size:45
Alignment explanation
Indices: 9340602--9340696 Score: 138
Period size: 45 Copynumber: 2.1 Consensus size: 45
9340592 TTACACCTCT
* *
9340602 ATTACATTCAACCAAACA-CAGTTTTACTATTACGCCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
** *
9340646 ATTACATTCAACCAAACAGTTGATTTGCTATTACACCTCTATTCC
1 ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
9340691 ATTACA
1 ATTACA
9340697 CCTCTAATCC
Statistics
Matches: 45, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
44 18 0.40
45 27 0.60
ACGTcount: A:0.33, C:0.27, G:0.05, T:0.35
Consensus pattern (45 bp):
ATTACATTCAACCAAACAGCAGATTTACTATTACACCTCTATTCC
Found at i:9340696 original size:16 final size:16
Alignment explanation
Indices: 9340675--9340707 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
9340665 TTGATTTGCT
*
9340675 ATTACACCTCTATTCC
1 ATTACACCTCTAATCC
9340691 ATTACACCTCTAATCC
1 ATTACACCTCTAATCC
9340707 A
1 A
9340708 ATCCAATACA
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:0.30, C:0.36, G:0.00, T:0.33
Consensus pattern (16 bp):
ATTACACCTCTAATCC
Found at i:9340717 original size:21 final size:21
Alignment explanation
Indices: 9340688--9340730 Score: 77
Period size: 21 Copynumber: 2.0 Consensus size: 21
9340678 ACACCTCTAT
*
9340688 TCCATTACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
9340709 TCCAATACACCTCTAATCCAA
1 TCCAATACACCTCTAATCCAA
9340730 T
1 T
9340731 ACAGCGAACC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.35, C:0.37, G:0.00, T:0.28
Consensus pattern (21 bp):
TCCAATACACCTCTAATCCAA
Found at i:9343837 original size:23 final size:23
Alignment explanation
Indices: 9343811--9343856 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
9343801 AAAGAGTAAA
*
9343811 TTAGTTATTTCTATTCAACATTT
1 TTAGTTATTTCTATTCAAAATTT
9343834 TTAGTTATTTCTATTCAAAATTT
1 TTAGTTATTTCTATTCAAAATTT
9343857 CCTCTATTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.28, C:0.11, G:0.04, T:0.57
Consensus pattern (23 bp):
TTAGTTATTTCTATTCAAAATTT
Found at i:9361782 original size:20 final size:20
Alignment explanation
Indices: 9361757--9361795 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
9361747 CGAGATTGCA
*
9361757 CTTTGGTGCCCCTATTTACG
1 CTTTGGTACCCCTATTTACG
*
9361777 CTTTGGTATCCCTATTTAC
1 CTTTGGTACCCCTATTTAC
9361796 ACTTCAGTGC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.13, C:0.28, G:0.15, T:0.44
Consensus pattern (20 bp):
CTTTGGTACCCCTATTTACG
Found at i:9372342 original size:11 final size:11
Alignment explanation
Indices: 9372326--9372351 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
9372316 CATTTATTTA
9372326 TTTATTTTCTT
1 TTTATTTTCTT
9372337 TTTATTTTCTT
1 TTTATTTTCTT
9372348 TTTA
1 TTTA
9372352 CACTTAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.12, C:0.08, G:0.00, T:0.81
Consensus pattern (11 bp):
TTTATTTTCTT
Found at i:9372422 original size:29 final size:26
Alignment explanation
Indices: 9372392--9372451 Score: 77
Period size: 26 Copynumber: 2.3 Consensus size: 26
9372382 TATTTGTGTA
* *
9372392 TTATTATTA-TTATTGTCGTTATTATT
1 TTATTATTATTTATTCTC-TCATTATT
*
9372418 TTATTTTTATTTATTCTCTCATTATT
1 TTATTATTATTTATTCTCTCATTATT
9372444 TTATTATT
1 TTATTATT
9372452 TCTTTTATTA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
26 22 0.76
27 7 0.24
ACGTcount: A:0.22, C:0.07, G:0.03, T:0.68
Consensus pattern (26 bp):
TTATTATTATTTATTCTCTCATTATT
Found at i:9373876 original size:17 final size:17
Alignment explanation
Indices: 9373854--9373888 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
9373844 TGTCTTTGCA
9373854 TTACGACTTTTCAACCT
1 TTACGACTTTTCAACCT
9373871 TTACGACTTTTCAACCT
1 TTACGACTTTTCAACCT
9373888 T
1 T
9373889 AATCAGATAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.23, C:0.29, G:0.06, T:0.43
Consensus pattern (17 bp):
TTACGACTTTTCAACCT
Found at i:9377141 original size:84 final size:84
Alignment explanation
Indices: 9377006--9377252 Score: 226
Period size: 84 Copynumber: 2.9 Consensus size: 84
9376996 AGAAGATGGG
* * * * * * *
9377006 ACCGTTCCTACTCTCCTGATGATCGATATTACAGAAGGCGTGATAGATCTTACACTCC-CAAGGA
1 ACCGTTCCTACTCACCTGATGATCGATACTACAGAAGGCGGGACAGTTCTTACACACCTCAAGAA
* * * *
9377070 CTGTTACTACCGCAGGTGGA
66 C-GATACTACAGAAGGCGGA
* * * * * *
9377090 ACCGTTCCTACTCACCTGATGATGGATACTATAGAAGGCGGGACCGTTCTTATACACCTGATGAA
1 ACCGTTCCTACTCACCTGATGATCGATACTACAGAAGGCGGGACAGTTCTTACACACCTCAAGAA
* *
9377155 CGATACTATAGAAGGCGGG
66 CGATACTACAGAAGGCGGA
* * * * * * * *
9377174 ATCGTTCCTACTCACCTGACGATCGATACTACAGAAGGCGGGACTGTTCCTACTCACCTGATGAT
1 ACCGTTCCTACTCACCTGATGATCGATACTACAGAAGGCGGGACAGTTCTTACACACCTCAAGAA
*
9377239 CGATACTATAGAAG
66 CGATACTACAGAAG
9377253 ACATGACCGG
Statistics
Matches: 134, Mismatches: 28, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
84 130 0.97
85 4 0.03
ACGTcount: A:0.28, C:0.25, G:0.22, T:0.25
Consensus pattern (84 bp):
ACCGTTCCTACTCACCTGATGATCGATACTACAGAAGGCGGGACAGTTCTTACACACCTCAAGAA
CGATACTACAGAAGGCGGA
Found at i:9377267 original size:42 final size:42
Alignment explanation
Indices: 9377090--9377252 Score: 247
Period size: 42 Copynumber: 3.9 Consensus size: 42
9377080 CGCAGGTGGA
*
9377090 ACCGTTCCTACTCACCTGATGATGGATACTATAGAAGGCGGG
1 ACCGTTCCTACTCACCTGATGATCGATACTATAGAAGGCGGG
* *
9377132 ACCGTTCTTA-TACACCTGATGAACGATACTATAGAAGGCGGG
1 ACCGTTCCTACT-CACCTGATGATCGATACTATAGAAGGCGGG
* * *
9377174 ATCGTTCCTACTCACCTGACGATCGATACTACAGAAGGCGGG
1 ACCGTTCCTACTCACCTGATGATCGATACTATAGAAGGCGGG
*
9377216 ACTGTTCCTACTCACCTGATGATCGATACTATAGAAG
1 ACCGTTCCTACTCACCTGATGATCGATACTATAGAAG
9377253 ACATGACCGG
Statistics
Matches: 107, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
41 1 0.01
42 105 0.98
43 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.23, T:0.25
Consensus pattern (42 bp):
ACCGTTCCTACTCACCTGATGATCGATACTATAGAAGGCGGG
Found at i:9378175 original size:16 final size:16
Alignment explanation
Indices: 9378164--9378225 Score: 56
Period size: 17 Copynumber: 3.8 Consensus size: 16
9378154 TTAATTACTT
9378164 TAATATTAAATTAATA
1 TAATATTAAATTAATA
* * *
9378180 TAATATT-TATCAAGA
1 TAATATTAAATTAATA
9378195 TAAATATTAAATTAA-A
1 T-AATATTAAATTAATA
9378211 TTAAATATTAAATTA
1 -T-AATATTAAATTA
9378226 TTAAAATAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
15 6 0.16
16 14 0.37
17 18 0.47
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (16 bp):
TAATATTAAATTAATA
Found at i:9379827 original size:16 final size:16
Alignment explanation
Indices: 9379806--9379836 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
9379796 TTATGTATGC
*
9379806 AAAATATAAAAGACAG
1 AAAATACAAAAGACAG
9379822 AAAATACAAAAGACA
1 AAAATACAAAAGACA
9379837 TAATAGTGAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.71, C:0.10, G:0.10, T:0.10
Consensus pattern (16 bp):
AAAATACAAAAGACAG
Found at i:9384503 original size:34 final size:34
Alignment explanation
Indices: 9384465--9384532 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
9384455 GGAGAGAGGG
9384465 AATGCATGCTTCAAAATCCGTTTCTCAGGACGTA
1 AATGCATGCTTCAAAATCCGTTTCTCAGGACGTA
*
9384499 AATGCATGCTTCAAAATCCGTTTCTGAGGACGTA
1 AATGCATGCTTCAAAATCCGTTTCTCAGGACGTA
9384533 CTTTTGTTAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.29
Consensus pattern (34 bp):
AATGCATGCTTCAAAATCCGTTTCTCAGGACGTA
Found at i:9396016 original size:5 final size:5
Alignment explanation
Indices: 9396006--9396034 Score: 51
Period size: 5 Copynumber: 6.0 Consensus size: 5
9395996 TATAAAATAT
9396006 TATTA TATTA TATTA TATTA TATTA -ATTA
1 TATTA TATTA TATTA TATTA TATTA TATTA
9396035 AAGAAAGTAA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
4 4 0.17
5 20 0.83
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATTA
Found at i:9396115 original size:17 final size:18
Alignment explanation
Indices: 9396083--9396117 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
9396073 CAATTGTGTG
*
9396083 GTAATAAAATATATATGT
1 GTAATAAAATACATATGT
9396101 GTAAT-AAATACATATGT
1 GTAATAAAATACATATGT
9396118 ATATTTGTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.49, C:0.03, G:0.11, T:0.37
Consensus pattern (18 bp):
GTAATAAAATACATATGT
Found at i:9396126 original size:23 final size:23
Alignment explanation
Indices: 9396094--9396138 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
9396084 TAATAAAATA
9396094 TATATGTGTAATAAATACATATG
1 TATATGTGTAATAAATACATATG
* * *
9396117 TATATTTGTAATACATATATAT
1 TATATGTGTAATAAATACATAT
9396139 TTACTTATTA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.42, C:0.04, G:0.09, T:0.44
Consensus pattern (23 bp):
TATATGTGTAATAAATACATATG
Found at i:9397314 original size:5 final size:5
Alignment explanation
Indices: 9397304--9397353 Score: 91
Period size: 5 Copynumber: 10.0 Consensus size: 5
9397294 TTTATTGAAT
*
9397304 TAATA TAATA TAACA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
1 TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA TAATA
9397354 ATATTTATAT
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
5 43 1.00
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (5 bp):
TAATA
Found at i:9399867 original size:43 final size:43
Alignment explanation
Indices: 9399772--9399885 Score: 142
Period size: 43 Copynumber: 2.7 Consensus size: 43
9399762 ATCGAGATGT
* *
9399772 GATTACATGTAAGACCATGTCTGGGACATTGGCATTGTATTGA
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCATTGTAATGA
*
9399815 GATTACGTGTAAGACCATGTCTGGGACATTGGCATCAT-TAAT-C
1 GATTACGTGTAAGACCATGTCTGGGACATTGGCAT--TGTAATGA
* * *
9399858 GATTTCGTGTAAGACCCTGTCTTGGACA
1 GATTACGTGTAAGACCATGTCTGGGACA
9399886 GTAGCATCGA
Statistics
Matches: 63, Mismatches: 6, Indels: 4
0.86 0.08 0.05
Matches are distributed among these distances:
43 59 0.94
44 3 0.05
45 1 0.02
ACGTcount: A:0.26, C:0.18, G:0.25, T:0.32
Consensus pattern (43 bp):
GATTACGTGTAAGACCATGTCTGGGACATTGGCATTGTAATGA
Found at i:9402460 original size:50 final size:50
Alignment explanation
Indices: 9402385--9402561 Score: 293
Period size: 50 Copynumber: 3.5 Consensus size: 50
9402375 CCATGGCAAC
*
9402385 AAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGAACAAGTGA
1 AAGTGATAAATGATAGCTTCGGCTACACTTATCTGATCAAGAACAAGTGA
9402435 AAGTGATAAATGATAGCTTCGGCTACACTTATCTGATCAAGAACAAGTGA
1 AAGTGATAAATGATAGCTTCGGCTACACTTATCTGATCAAGAACAAGTGA
* *
9402485 AAGTGATAAATGATAGCTTCGGCTACACTTATCTGATCAAGGACAAATGA
1 AAGTGATAAATGATAGCTTCGGCTACACTTATCTGATCAAGAACAAGTGA
*
9402535 CAAGTGA-AAAGTGGTAGCTTCGGCTAC
1 -AAGTGATAAA-TGATAGCTTCGGCTAC
9402562 CTGATCAGTG
Statistics
Matches: 121, Mismatches: 4, Indels: 3
0.95 0.03 0.02
Matches are distributed among these distances:
50 100 0.83
51 21 0.17
ACGTcount: A:0.36, C:0.16, G:0.22, T:0.25
Consensus pattern (50 bp):
AAGTGATAAATGATAGCTTCGGCTACACTTATCTGATCAAGAACAAGTGA
Found at i:9402575 original size:31 final size:31
Alignment explanation
Indices: 9402537--9402716 Score: 279
Period size: 31 Copynumber: 5.8 Consensus size: 31
9402527 ACAAATGACA
9402537 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* * *
9402568 AGTGAAAAGTGGTAGCTCCGGCTACCTAATT
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
9402599 AGTGAAAAATGGTAGCTTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
*
9402630 AGTGAAAAGTGGTAGATTCGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
9402661 AGTGAAAAATGGTAGCTTTGGCTACCTGATC
1 AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
* *
9402692 AGTGAATAGTGGTAGCTTCAGCTAC
1 AGTGAAAAGTGGTAGCTTCGGCTAC
9402717 AAGTGACAAG
Statistics
Matches: 133, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
31 133 1.00
ACGTcount: A:0.28, C:0.18, G:0.27, T:0.27
Consensus pattern (31 bp):
AGTGAAAAGTGGTAGCTTCGGCTACCTGATC
Found at i:9411030 original size:43 final size:43
Alignment explanation
Indices: 9410909--9411038 Score: 120
Period size: 43 Copynumber: 3.0 Consensus size: 43
9410899 ACATTAGGTT
* *
9410909 ATCGAGATGTGATTACATGTAAGACCATGTCTGGGACATTGGC
1 ATCGATATGTGATTACATGTAAGACCATGTCTGGGACAGTGGC
* ** * * * * *
9410952 ATCGTTAAT-CAATTTCGTGTAAGACCCTGTTTGGGACGGTGGC
1 ATCGAT-ATGTGATTACATGTAAGACCATGTCTGGGACAGTGGC
* * *
9410995 ATCGATATGTGATAACATGTAAGACCATATCTGGGATA-TGGC
1 ATCGATATGTGATTACATGTAAGACCATGTCTGGGACAGTGGC
9411037 AT
1 AT
9411039 TGTATGAGCT
Statistics
Matches: 64, Mismatches: 21, Indels: 5
0.71 0.23 0.06
Matches are distributed among these distances:
42 8 0.12
43 54 0.84
44 2 0.03
ACGTcount: A:0.28, C:0.16, G:0.26, T:0.30
Consensus pattern (43 bp):
ATCGATATGTGATTACATGTAAGACCATGTCTGGGACAGTGGC
Found at i:9411130 original size:25 final size:25
Alignment explanation
Indices: 9411096--9411145 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
9411086 TTCAGCGGGC
*
9411096 AAAGTCAAGTCGAGAAAGAATATGT
1 AAAGCCAAGTCGAGAAAGAATATGT
9411121 AAAGCCAAGTCGAGAAAGAATATGT
1 AAAGCCAAGTCGAGAAAGAATATGT
9411146 GAATGAACTA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.48, C:0.10, G:0.24, T:0.18
Consensus pattern (25 bp):
AAAGCCAAGTCGAGAAAGAATATGT
Found at i:9415540 original size:26 final size:27
Alignment explanation
Indices: 9415504--9415566 Score: 76
Period size: 27 Copynumber: 2.4 Consensus size: 27
9415494 CTTAGCTTTT
*
9415504 ATGAGCATCCTGATT-A-TAGGCTCTTA
1 ATGAGCTTCCTG-TTAAGTAGGCTCTTA
*
9415530 ATGAGCTTCCTGTTAAGTTGGCTCTTA
1 ATGAGCTTCCTGTTAAGTAGGCTCTTA
*
9415557 GTGAGCTTCC
1 ATGAGCTTCC
9415567 CGATAGTGCT
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
25 2 0.06
26 12 0.38
27 18 0.56
ACGTcount: A:0.21, C:0.21, G:0.22, T:0.37
Consensus pattern (27 bp):
ATGAGCTTCCTGTTAAGTAGGCTCTTA
Found at i:9415660 original size:23 final size:23
Alignment explanation
Indices: 9415623--9415668 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
9415613 CCCATTATAT
* *
9415623 GGCTTTTTGTAAGCTTCTTGATA
1 GGCTTTTCGTAAGCTTCTCGATA
*
9415646 GGCTTTTCGTGAGCTTCTCGATA
1 GGCTTTTCGTAAGCTTCTCGATA
9415669 TGGTTCTTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.15, C:0.17, G:0.24, T:0.43
Consensus pattern (23 bp):
GGCTTTTCGTAAGCTTCTCGATA
Found at i:9415760 original size:23 final size:24
Alignment explanation
Indices: 9415501--9415782 Score: 98
Period size: 25 Copynumber: 11.5 Consensus size: 24
9415491 CACCTTAGCT
*
9415501 TTTATGAGCATCCTGATTATAGGCTC
1 TTTATGAGCTTCCTGA-TAT-GGCTC
* *
9415527 TTAATGAGCTTCCTGTTAAGTTGGCTC
1 TTTATGAGCTTCCTGAT-A--TGGCTC
*
9415554 -TTAGTGAGCTTCCCGATA-GTGCTC
1 TTTA-TGAGCTTCCTGATATG-GCTC
** *
9415578 GCT-TGAACTTCCTGATATATGGCT-
1 TTTATGAGCTTCCTG--ATATGGCTC
* ** * * *
9415602 ATTCGGAGTTTCCCATTATATGGCTT
1 TTTATGAGCTT-CC-TGATATGGCTC
* * *
9415628 TTTGTAAGCTTCTTGATA-GGCT-
1 TTTATGAGCTTCCTGATATGGCTC
* *
9415650 TTTCGTGAGCTT-CTCGATATGGTTC
1 TTT-ATGAGCTTCCT-GATATGGCTC
* * *
9415675 TTTGTGAACTTTCTGATTATGGCTC
1 TTTATGAGCTTCCTGA-TATGGCTC
*
9415700 -TTATGAGCTTCCTGTTATATAGC-C
1 TTTATGAGCTTCCTG--ATATGGCTC
** *
9415724 TGGATAAGCTTCCTGATA-GGCTC
1 TTTATGAGCTTCCTGATATGGCTC
*
9415747 TTTATGAGCTTCCTGAAATGGCTC
1 TTTATGAGCTTCCTGATATGGCTC
* *
9415771 TGTGTGAGCTTC
1 TTTATGAGCTTC
9415783 ATGTTATAAG
Statistics
Matches: 191, Mismatches: 41, Indels: 50
0.68 0.15 0.18
Matches are distributed among these distances:
22 6 0.03
23 43 0.23
24 48 0.25
25 49 0.26
26 27 0.14
27 17 0.09
28 1 0.01
ACGTcount: A:0.18, C:0.20, G:0.22, T:0.40
Consensus pattern (24 bp):
TTTATGAGCTTCCTGATATGGCTC
Found at i:9415778 original size:24 final size:23
Alignment explanation
Indices: 9415730--9415782 Score: 70
Period size: 24 Copynumber: 2.3 Consensus size: 23
9415720 AGCCTGGATA
* *
9415730 AGCTTCCTGATAGGCTCTTTATG
1 AGCTTCCTGAAAGGCTCTGTATG
*
9415753 AGCTTCCTGAAATGGCTCTGTGTG
1 AGCTTCCTGAAA-GGCTCTGTATG
9415777 AGCTTC
1 AGCTTC
9415783 ATGTTATAAG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 11 0.42
24 15 0.58
ACGTcount: A:0.17, C:0.23, G:0.25, T:0.36
Consensus pattern (23 bp):
AGCTTCCTGAAAGGCTCTGTATG
Found at i:9417387 original size:49 final size:50
Alignment explanation
Indices: 9417312--9417458 Score: 197
Period size: 50 Copynumber: 3.0 Consensus size: 50
9417302 GTAGCCAAAG
* * * * *
9417312 CTATCTGGCACACATAGTCGCTTGCACTTAGTACTACACATGCGACC-AA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTAA
* *
9417361 TTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCTAA
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTAA
* * *
9417411 CCATCTGATACACGTAGTAGCCTGCACTTAGTACTACACACGTGACCT
1 CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCT
9417459 CACAATAGAT
Statistics
Matches: 87, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
49 40 0.46
50 47 0.54
ACGTcount: A:0.28, C:0.29, G:0.17, T:0.26
Consensus pattern (50 bp):
CTATCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGCGACCTAA
Found at i:9417431 original size:50 final size:50
Alignment explanation
Indices: 9417334--9417458 Score: 198
Period size: 50 Copynumber: 2.5 Consensus size: 50
9417324 CATAGTCGCT
* * ** *
9417334 TGCACTTAGTACTACACATGCGACC-AATTATCTGGTACACGTAGTAGCC
1 TGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCC
9417383 TGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCC
1 TGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCC
9417433 TGCACTTAGTACTACACACGTGACCT
1 TGCACTTAGTACTACACACGTGACCT
9417459 CACAATAGAT
Statistics
Matches: 70, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
49 23 0.33
50 47 0.67
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.26
Consensus pattern (50 bp):
TGCACTTAGTACTACACACGTGACCTAACCATCTGATACACGTAGTAGCC
Found at i:9420944 original size:12 final size:12
Alignment explanation
Indices: 9420927--9420953 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
9420917 GACACACCCA
9420927 TGTCACAAGCCG
1 TGTCACAAGCCG
9420939 TGTCACAAGCCG
1 TGTCACAAGCCG
9420951 TGT
1 TGT
9420954 GAAAACAGGA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.22, C:0.30, G:0.26, T:0.22
Consensus pattern (12 bp):
TGTCACAAGCCG
Found at i:9422610 original size:28 final size:28
Alignment explanation
Indices: 9422578--9422673 Score: 165
Period size: 28 Copynumber: 3.4 Consensus size: 28
9422568 CGATATTTTG
9422578 CACACTAAGTGCCATTCTCAATATCTCA
1 CACACTAAGTGCCATTCTCAATATCTCA
*
9422606 CACACTAAGTGCCATTCTCAATATCTTA
1 CACACTAAGTGCCATTCTCAATATCTCA
* *
9422634 CACACTAAGTGCCATTCTCAATATTTCG
1 CACACTAAGTGCCATTCTCAATATCTCA
9422662 CACACTAAGTGC
1 CACACTAAGTGC
9422674 TATATTTGAT
Statistics
Matches: 64, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 64 1.00
ACGTcount: A:0.31, C:0.30, G:0.09, T:0.29
Consensus pattern (28 bp):
CACACTAAGTGCCATTCTCAATATCTCA
Found at i:9422752 original size:40 final size:40
Alignment explanation
Indices: 9422708--9422792 Score: 109
Period size: 40 Copynumber: 2.1 Consensus size: 40
9422698 GTGCTGTACA
*
9422708 TAGCCAAAGCTAT-CTCAAATCACACACTAAGTGCCAAATT
1 TAGCCAAAGCTATAC-CAAACCACACACTAAGTGCCAAATT
* * * *
9422748 TAGCCGAAGCTATACCGAACCGCACACTAAGTGCCATATT
1 TAGCCAAAGCTATACCAAACCACACACTAAGTGCCAAATT
9422788 TAGCC
1 TAGCC
9422793 GATATGTCAT
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
40 38 0.97
41 1 0.03
ACGTcount: A:0.35, C:0.29, G:0.14, T:0.21
Consensus pattern (40 bp):
TAGCCAAAGCTATACCAAACCACACACTAAGTGCCAAATT
Found at i:9424601 original size:22 final size:23
Alignment explanation
Indices: 9424574--9424621 Score: 71
Period size: 22 Copynumber: 2.1 Consensus size: 23
9424564 TATTATTGTT
*
9424574 AATTAATTATGAATTTT-AATTA
1 AATTAATTATAAATTTTAAATTA
*
9424596 AATTAATTTTAAATTTTAAATTA
1 AATTAATTATAAATTTTAAATTA
9424619 AAT
1 AAT
9424622 ATTAATAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
22 15 0.65
23 8 0.35
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (23 bp):
AATTAATTATAAATTTTAAATTA
Found at i:9424605 original size:15 final size:15
Alignment explanation
Indices: 9424585--9424635 Score: 50
Period size: 15 Copynumber: 3.2 Consensus size: 15
9424575 ATTAATTATG
9424585 AATTTTAATTAAATT
1 AATTTTAATTAAATT
9424600 AATTTTAAATTTTAAATT
1 AATTTT-AA--TTAAATT
*
9424618 AAATATTAA-TAAATT
1 -AATTTTAATTAAATT
9424633 AAT
1 AAT
9424636 ATCATTACTT
Statistics
Matches: 31, Mismatches: 1, Indels: 9
0.76 0.02 0.22
Matches are distributed among these distances:
14 3 0.10
15 12 0.39
16 2 0.06
18 9 0.29
19 5 0.16
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (15 bp):
AATTTTAATTAAATT
Found at i:9426768 original size:27 final size:27
Alignment explanation
Indices: 9426730--9426785 Score: 94
Period size: 27 Copynumber: 2.1 Consensus size: 27
9426720 GTCGTCATTC
*
9426730 CTTGTATGGTAATGAATCTAGCAAACT
1 CTTGTATGGTAATCAATCTAGCAAACT
*
9426757 CTTGTTTGGTAATCAATCTAGCAAACT
1 CTTGTATGGTAATCAATCTAGCAAACT
9426784 CT
1 CT
9426786 AGTCCAGTGC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
27 27 1.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (27 bp):
CTTGTATGGTAATCAATCTAGCAAACT
Found at i:9428996 original size:18 final size:18
Alignment explanation
Indices: 9428973--9429007 Score: 70
Period size: 18 Copynumber: 1.9 Consensus size: 18
9428963 GAGATCGAAC
9428973 CCCAATCACATAATTAAG
1 CCCAATCACATAATTAAG
9428991 CCCAATCACATAATTAA
1 CCCAATCACATAATTAA
9429008 AAGATGAAGT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.46, C:0.29, G:0.03, T:0.23
Consensus pattern (18 bp):
CCCAATCACATAATTAAG
Found at i:9429090 original size:23 final size:23
Alignment explanation
Indices: 9429060--9429104 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
9429050 TTCTTTTTCA
9429060 TTTTATTATTACCCCAACATTCG
1 TTTTATTATTACCCCAACATTCG
*
9429083 TTTTATTATTACTCCAACATTC
1 TTTTATTATTACCCCAACATTC
9429105 ACTTGGCACA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.27, C:0.24, G:0.02, T:0.47
Consensus pattern (23 bp):
TTTTATTATTACCCCAACATTCG
Found at i:9432952 original size:16 final size:16
Alignment explanation
Indices: 9432898--9432964 Score: 53
Period size: 16 Copynumber: 3.9 Consensus size: 16
9432888 AACATGTACC
**
9432898 AAAAAATGATAAAAAAT
1 AAAAAAT-ATAAAATTT
*
9432915 AAAAATTAATAAAAGTTAT
1 AAAAAAT-ATAAAA-TT-T
*
9432934 AAAAAATATTAAATTT
1 AAAAAATATAAAATTT
*
9432950 AAAATATATAAAATT
1 AAAAAATATAAAATT
9432965 AGAATTTTTT
Statistics
Matches: 40, Mismatches: 8, Indels: 5
0.75 0.15 0.09
Matches are distributed among these distances:
16 14 0.35
17 14 0.35
18 5 0.12
19 7 0.17
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.30
Consensus pattern (16 bp):
AAAAAATATAAAATTT
Found at i:9433004 original size:29 final size:29
Alignment explanation
Indices: 9432972--9433029 Score: 82
Period size: 28 Copynumber: 2.0 Consensus size: 29
9432962 ATTAGAATTT
9432972 TTTTATAAAAATAGTAAAAAAA-TATAAAA
1 TTTTAT-AAAATAGTAAAAAAATTATAAAA
* *
9433001 TTTTATAAAGTCGTAAAAAAATTATAAAA
1 TTTTATAAAATAGTAAAAAAATTATAAAA
9433030 AATATAAAGA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
28 13 0.50
29 13 0.50
ACGTcount: A:0.60, C:0.02, G:0.05, T:0.33
Consensus pattern (29 bp):
TTTTATAAAATAGTAAAAAAATTATAAAA
Found at i:9433035 original size:28 final size:28
Alignment explanation
Indices: 9432985--9433038 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
9432975 TATAAAAATA
**
9432985 GTAAAAAAATATAAAATTTTATAAAGTC
1 GTAAAAAAATATAAAATAATATAAAGTC
9433013 GTAAAAAAATTATAAAA-AATATAAAG
1 GTAAAAAAA-TATAAAATAATATAAAG
9433039 AAATATAATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
28 16 0.70
29 7 0.30
ACGTcount: A:0.63, C:0.02, G:0.07, T:0.28
Consensus pattern (28 bp):
GTAAAAAAATATAAAATAATATAAAGTC
Found at i:9433252 original size:11 final size:9
Alignment explanation
Indices: 9433238--9433320 Score: 58
Period size: 9 Copynumber: 8.7 Consensus size: 9
9433228 TTTTGATGCA
9433238 TTTTATAATCT
1 TTTTATAA--T
*
9433249 TTTTACAAT
1 TTTTATAAT
*
9433258 TTTTATAACA
1 TTTTATAA-T
* *
9433268 TTTTACATT
1 TTTTATAAT
*
9433277 TTTTATATT
1 TTTTATAAT
*
9433286 TTTTACAAT
1 TTTTATAAT
9433295 TTTTATTAAAT
1 TTTTA-T-AAT
*
9433306 TTTAATAAT
1 TTTTATAAT
9433315 TTTTAT
1 TTTTAT
9433321 TGATGTTTAT
Statistics
Matches: 57, Mismatches: 12, Indels: 8
0.74 0.16 0.10
Matches are distributed among these distances:
9 36 0.63
10 7 0.12
11 14 0.25
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (9 bp):
TTTTATAAT
Found at i:9433271 original size:19 final size:19
Alignment explanation
Indices: 9433238--9433320 Score: 80
Period size: 19 Copynumber: 4.3 Consensus size: 19
9433228 TTTTGATGCA
*
9433238 TTTTATAATCTTTTTACAAT
1 TTTTATAA-CATTTTACAAT
*
9433258 TTTTATAACATTTTACATT
1 TTTTATAACATTTTACAAT
**
9433277 TTTTAT-ATTTTTTACAAT
1 TTTTATAACATTTTACAAT
*
9433295 TTTTATTAA-ATTTTAATAAT
1 TTTTA-TAACATTTT-ACAAT
9433315 TTTTAT
1 TTTTAT
9433321 TGATGTTTAT
Statistics
Matches: 53, Mismatches: 7, Indels: 7
0.79 0.10 0.10
Matches are distributed among these distances:
18 14 0.26
19 21 0.40
20 18 0.34
ACGTcount: A:0.31, C:0.06, G:0.00, T:0.63
Consensus pattern (19 bp):
TTTTATAACATTTTACAAT
Found at i:9433979 original size:84 final size:85
Alignment explanation
Indices: 9433877--9434077 Score: 230
Period size: 84 Copynumber: 2.3 Consensus size: 85
9433867 GAGCAATTAA
* * * *
9433877 TTTTTTTTACATTCAATTGGGTATTTGAATTTTCAAAATGTATCAAAAAA-GC-CCCAAAAC-TT
1 TTTTTTTTAC-TT-AATTGGGTACTTGAACTTTCAAAATGCAT-AAAAAATACTCCC-AAACTTT
*
9433939 TTTCAAATAAAAGCTATTAAG-CCT
62 TTTCAAA-AAAAGCAATTAAGTCCT
* *
9433963 TTTTTTTTACTTAATTGGGTGCTTGAACTTTCAAAATGCATAAAAAATACTCTCAAACTTTTTTC
1 TTTTTTTTACTTAATTGGGTACTTGAACTTTCAAAATGCATAAAAAATACTCCCAAACTTTTTTC
*
9434028 AAAAAAAGCAATTAAGTCTT
66 AAAAAAAGCAATTAAGTCCT
*
9434048 TTCTTTTTTCACTCAATTGGGTACTTGAAC
1 TT-TTTTTT-ACTTAATTGGGTACTTGAAC
9434078 CGTCAAAGTG
Statistics
Matches: 99, Mismatches: 10, Indels: 11
0.82 0.08 0.09
Matches are distributed among these distances:
83 6 0.06
84 42 0.42
85 17 0.17
86 16 0.16
87 18 0.18
ACGTcount: A:0.34, C:0.15, G:0.10, T:0.40
Consensus pattern (85 bp):
TTTTTTTTACTTAATTGGGTACTTGAACTTTCAAAATGCATAAAAAATACTCCCAAACTTTTTTC
AAAAAAAGCAATTAAGTCCT
Found at i:9434090 original size:87 final size:84
Alignment explanation
Indices: 9433933--9434090 Score: 210
Period size: 87 Copynumber: 1.8 Consensus size: 84
9433923 AAAAGCCCCA
* * * **
9433933 AAACTTTTTCAAATAAAAGCTATTAAGCCTTTTTTTTTACTTAATTGGGTGCTTGAACTTTCAAA
1 AAACTTTTTCAAATAAAAGCAATTAAGCCTTTTTTTTTACTCAATTGGGTACTTGAACCGTCAAA
9433998 ATGCATAAAAAATACTCTC
66 ATGCATAAAAAATACTCTC
*
9434017 AAACTTTTTTCAAA-AAAAGCAATTAAGTCTTTTCTTTTTTCACTCAATTGGGTACTTGAACCGT
1 AAAC-TTTTTCAAATAAAAGCAATTAAG-CCTTT-TTTTTT-ACTCAATTGGGTACTTGAACCGT
*
9434081 CAAAGTGCAT
62 CAAAATGCAT
9434091 CCAAAAAGTA
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
84 16 0.25
85 13 0.21
86 6 0.10
87 28 0.44
ACGTcount: A:0.34, C:0.16, G:0.11, T:0.39
Consensus pattern (84 bp):
AAACTTTTTCAAATAAAAGCAATTAAGCCTTTTTTTTTACTCAATTGGGTACTTGAACCGTCAAA
ATGCATAAAAAATACTCTC
Found at i:9434373 original size:20 final size:19
Alignment explanation
Indices: 9434330--9434403 Score: 73
Period size: 19 Copynumber: 3.8 Consensus size: 19
9434320 ATTCTTTTAC
9434330 AATTTTTATAATTTTT-AT-
1 AATTTTTA-AATTTTTAATA
9434348 AATTTTTCAAATTTTTAATA
1 AATTTTT-AAATTTTTAATA
*
9434368 AATTTTTAATATTTTTATTA
1 AATTTTTAA-ATTTTTAATA
*
9434388 AA-ATTTAATATTTTTA
1 AATTTTTAA-ATTTTTA
9434404 TTTTTATTTA
Statistics
Matches: 50, Mismatches: 2, Indels: 7
0.85 0.03 0.12
Matches are distributed among these distances:
18 14 0.28
19 18 0.36
20 18 0.36
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (19 bp):
AATTTTTAAATTTTTAATA
Found at i:9434403 original size:9 final size:10
Alignment explanation
Indices: 9434330--9434403 Score: 68
Period size: 9 Copynumber: 7.8 Consensus size: 10
9434320 ATTCTTTTAC
9434330 AATTTTT-AT
1 AATTTTTAAT
9434339 AATTTTT-AT
1 AATTTTTAAT
*
9434348 AATTTTTCA-
1 AATTTTTAAT
9434357 AATTTTTAAT
1 AATTTTTAAT
9434367 AAATTTTTAAT
1 -AATTTTTAAT
*
9434378 -ATTTTTATT
1 AATTTTTAAT
**
9434387 AAAATTTAAT
1 AATTTTTAAT
9434397 -ATTTTTA
1 AATTTTTA
9434404 TTTTTATTTA
Statistics
Matches: 54, Mismatches: 7, Indels: 8
0.78 0.10 0.12
Matches are distributed among these distances:
9 37 0.69
10 7 0.13
11 10 0.19
ACGTcount: A:0.38, C:0.01, G:0.00, T:0.61
Consensus pattern (10 bp):
AATTTTTAAT
Found at i:9439063 original size:33 final size:33
Alignment explanation
Indices: 9439019--9439150 Score: 149
Period size: 33 Copynumber: 4.0 Consensus size: 33
9439009 ACTTGAGCCA
* * *
9439019 GGAGGAATGGAGTACA-GCGGTGGATACGGGCCG
1 GGAGGAGTGGAGTA-AGGAGGTGGATACAGGCCG
* *
9439052 GGAGGAGTGGAGTAAGGCGGTGGATACAGACCG
1 GGAGGAGTGGAGTAAGGAGGTGGATACAGGCCG
* * *
9439085 GGAGGAGTGGAGTACGAAGGTGGATACAGGCTG
1 GGAGGAGTGGAGTAAGGAGGTGGATACAGGCCG
* * *
9439118 GAAGGAGTGGAGTAATGAGGTGGATACAAGCCG
1 GGAGGAGTGGAGTAAGGAGGTGGATACAGGCCG
9439151 AAATGACTGG
Statistics
Matches: 84, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
32 1 0.01
33 83 0.99
ACGTcount: A:0.28, C:0.11, G:0.47, T:0.14
Consensus pattern (33 bp):
GGAGGAGTGGAGTAAGGAGGTGGATACAGGCCG
Found at i:9439125 original size:66 final size:66
Alignment explanation
Indices: 9439019--9439145 Score: 175
Period size: 66 Copynumber: 1.9 Consensus size: 66
9439009 ACTTGAGCCA
* * * *
9439019 GGAGGAATGGAGTACAGCGGTGGATACGGGCCGGGAGGAGTGGAGTAAGGCGGTGGATACAGACC
1 GGAGGAATGGAGTACAGAGGTGGATACAGGCCGGAAGGAGTGGAGTAAGGAGGTGGATACAGACC
9439084 G
66 G
* * *
9439085 GGAGGAGTGGAGTAC-GAAGGTGGATACAGGCTGGAAGGAGTGGAGTAATGAGGTGGATACA
1 GGAGGAATGGAGTACAG-AGGTGGATACAGGCCGGAAGGAGTGGAGTAAGGAGGTGGATACA
9439146 AGCCGAAATG
Statistics
Matches: 53, Mismatches: 7, Indels: 2
0.85 0.11 0.03
Matches are distributed among these distances:
65 1 0.02
66 52 0.98
ACGTcount: A:0.28, C:0.10, G:0.47, T:0.14
Consensus pattern (66 bp):
GGAGGAATGGAGTACAGAGGTGGATACAGGCCGGAAGGAGTGGAGTAAGGAGGTGGATACAGACC
G
Done.