Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: chr10
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: 21822658
ACGTcount: A:0.31, C:0.16, G:0.16, T:0.32
Warning! 1067834 characters in sequence are not A, C, G, or T
File 37 of 59
Found at i:13449843 original size:28 final size:28
Alignment explanation
Indices: 13449757--13449843 Score: 67
Period size: 28 Copynumber: 3.1 Consensus size: 28
13449747 AGGTGATTCC
*
13449757 AGCTATGTGCGGTGTGAGAGTGCACATG
1 AGCTATGTGCGGTGTGGGAGTGCACATG
* * *
13449785 AGCTGATG-ACTGGTG-GGTGA-TG-A-TTCC
1 AGCT-ATGTGC-GGTGTGG-GAGTGCACAT-G
13449812 AGCTATGTGCGGTGTGGGAGTGCACATG
1 AGCTATGTGCGGTGTGGGAGTGCACATG
13449840 AGCT
1 AGCT
13449844 GATGACCGAA
Statistics
Matches: 43, Mismatches: 7, Indels: 18
0.63 0.10 0.26
Matches are distributed among these distances:
26 10 0.23
27 10 0.23
28 13 0.30
29 10 0.23
ACGTcount: A:0.20, C:0.15, G:0.39, T:0.26
Consensus pattern (28 bp):
AGCTATGTGCGGTGTGGGAGTGCACATG
Found at i:13454085 original size:252 final size:252
Alignment explanation
Indices: 13453714--13454302 Score: 686
Period size: 252 Copynumber: 2.3 Consensus size: 252
13453704 TTAGCTCAAT
* * ** * *
13453714 AATAAATATTTAAATGTTAAATTT-TCACAAAAATTAAATTTATTTTA-ATTTAATTAACTTGTT
1 AATAAAAATTTAAATGTTTAATTTCTC-CAAAAATTACGTTTATTTGACA--TAACTAACTTGTT
* * * * *
13453777 ATATTAAATCTCATATATTTACATCAATATTTTTACAATTCTGATTTCACTTTTATAATTTTTTA
63 ATATTAAATCTCATACATTTACATCAATATTTTGACAATACTGATTCCACTTTTATAATGTTTTA
* **
13453842 CATTAATTCTTACAACTTTACATCAAAAG-TTTTAAATTACTAATTTTCATTATAATTATTTTTA
128 CATTAATTCTTACAACTTTACATC-AAAGCTTTTAAACTACTAATTTTCACCATAATTATTTTTA
13453906 TCCTTACTATTATTCATGCATAGATTAAAAATTGTAAGAC-ATAAAACACTTTAAACTCGAG
192 TCCTTACTATTATTCATGCATAGATTAAAAATTGTAA-ACAATAAAACACTTTAAACTCGAG
* * * *
13453967 AGTAAAAATTTAAGTGTTTAATATTC-CCGAAAGTTACGTTTATTTGACATAACTAACTTGTTAT
1 AATAAAAATTTAAATGTTTAAT-TTCTCCAAAAATTACGTTTATTTGACATAACTAACTTGTTAT
* **
13454031 ACTAAATCTCATACATTTATGTCAATATTTTGACAATACTCG-TTCCACTTTTATAATGTTTTAC
65 ATTAAATCTCATACATTTACATCAATATTTTGACAATACT-GATTCCACTTTTATAATGTTTTAC
* * * ** ** * * *
13454095 GTTAATTCTTACGATTTTATGTCATGGCTTTTCAACTATTAATTTTCACCATAATTCTTTTTATC
129 ATTAATTCTTACAACTTTACATCAAAGCTTTTAAACTACTAATTTTCACCATAATTATTTTTATC
* ** * *
13454160 TTTACTATTATTCATTTATAGATTAAAATTTGTAAACAATAAAATACTTTAAACTCGAG
194 CTTACTATTATTCATGCATAGATTAAAAATTGTAAACAATAAAACACTTTAAACTCGAG
* * * * * *
13454219 AATAAAAATTTAAATGTTTAATTTCTCTAAAAATTATGTTTATTTGATATAATTGACTTGTTATG
1 AATAAAAATTTAAATGTTTAATTTCTCCAAAAATTACGTTTATTTGACATAACTAACTTGTTATA
*
13454284 TTAAATCTCACACATTTAC
66 TTAAATCTCATACATTTAC
13454303 GTTAAATCTC
Statistics
Matches: 280, Mismatches: 49, Indels: 15
0.81 0.14 0.04
Matches are distributed among these distances:
251 7 0.03
252 235 0.84
253 34 0.12
254 4 0.01
ACGTcount: A:0.37, C:0.12, G:0.06, T:0.45
Consensus pattern (252 bp):
AATAAAAATTTAAATGTTTAATTTCTCCAAAAATTACGTTTATTTGACATAACTAACTTGTTATA
TTAAATCTCATACATTTACATCAATATTTTGACAATACTGATTCCACTTTTATAATGTTTTACAT
TAATTCTTACAACTTTACATCAAAGCTTTTAAACTACTAATTTTCACCATAATTATTTTTATCCT
TACTATTATTCATGCATAGATTAAAAATTGTAAACAATAAAACACTTTAAACTCGAG
Found at i:13458597 original size:40 final size:40
Alignment explanation
Indices: 13458553--13458631 Score: 115
Period size: 40 Copynumber: 2.0 Consensus size: 40
13458543 GCCATGTTGC
* * *
13458553 GAGAATTTTCAATTGAGG-GGAAAGCATTGCTATAGGATGA
1 GAGAATTTTCAATCG-GGAGAAAAGCATTGCTATAAGATGA
13458593 GAGAATTTTCAATCGGGAGAAAAGCATTGCTATAAGATG
1 GAGAATTTTCAATCGGGAGAAAAGCATTGCTATAAGATG
13458632 GGGTAATGGA
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
39 2 0.06
40 33 0.94
ACGTcount: A:0.37, C:0.09, G:0.28, T:0.27
Consensus pattern (40 bp):
GAGAATTTTCAATCGGGAGAAAAGCATTGCTATAAGATGA
Found at i:13465521 original size:2 final size:2
Alignment explanation
Indices: 13465479--13465506 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
13465469 AAATACTCAG
13465479 TA 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
13465507 ATTTTATTAA
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):
TA
Found at i:13467463 original size:62 final size:61
Alignment explanation
Indices: 13467349--13467574 Score: 254
Period size: 62 Copynumber: 3.6 Consensus size: 61
13467339 AATCTCCAAA
* * * ** *
13467349 CAAGACAGAGAGTTTCTCGTTGCGGCGAGAATCAAATTTGGCTGCGATGAGAATAATGATTCC
1 CAAGACAGAAAGTTTCTCGCTGC-GCGAAAATC-AATTTGGCTGCGGCGAGAATAATGACTCC
* * * *
13467412 CAAGGCAGAAAGTTTCTCACTGCAGCGAAAATCAATTTGGCTGCGGCGAGAACAGTGACTCC
1 CAAGACAGAAAGTTTCTCGCTGC-GCGAAAATCAATTTGGCTGCGGCGAGAATAATGACTCC
* * *
13467474 CAAGACAGAAAGTTTCTCGCTACGACGAAAATCAATTTGGTTGCGGCGAGAATACTGACTCC
1 CAAGACAGAAAGTTTCTCGCTGCG-CGAAAATCAATTTGGCTGCGGCGAGAATAATGACTCC
* * * *
13467536 CAAGACAAAAAGTTTCTCGTTGTGGCAAAAATCAATTTG
1 CAAGACAGAAAGTTTCTCGCTG-CGCGAAAATCAATTTG
13467575 TTTGCAATAC
Statistics
Matches: 139, Mismatches: 22, Indels: 5
0.84 0.13 0.03
Matches are distributed among these distances:
61 1 0.01
62 110 0.79
63 28 0.20
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.23
Consensus pattern (61 bp):
CAAGACAGAAAGTTTCTCGCTGCGCGAAAATCAATTTGGCTGCGGCGAGAATAATGACTCC
Found at i:13467570 original size:124 final size:125
Alignment explanation
Indices: 13467349--13467574 Score: 292
Period size: 124 Copynumber: 1.8 Consensus size: 125
13467339 AATCTCCAAA
* * * * * * *
13467349 CAAGACAGAGAGTTTCTCGTTGCGGCGAGAATCAAATTTGGCTGCGATGAGAATAATGATTCCCA
1 CAAGACAGAAAGTTTCTCGCTACGACGAAAATCAAATTTGGCTGCGACGAGAATAATGACTCCCA
* * *
13467414 AGGCAGAAAGTTTCTCACTGCAGCGAAAATCAATTTGGCTGCGGCGAGAACAGTGACTCC
66 AGACAAAAAGTTTCTCACTGCAGCAAAAATCAATTTGGCTGCGGCGAGAACAGTGACTCC
* * *
13467474 CAAGACAGAAAGTTTCTCGCTACGACGAAAATC-AATTTGGTTGCGGCGAGAATACTGACTCCCA
1 CAAGACAGAAAGTTTCTCGCTACGACGAAAATCAAATTTGGCTGCGACGAGAATAATGACTCCCA
** **
13467538 AGACAAAAAGTTTCTCGTTGTGGCAAAAATCAATTTG
66 AGACAAAAAGTTTCTCACTGCAGCAAAAATCAATTTG
13467575 TTTGCAATAC
Statistics
Matches: 84, Mismatches: 17, Indels: 1
0.82 0.17 0.01
Matches are distributed among these distances:
124 56 0.67
125 28 0.33
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.23
Consensus pattern (125 bp):
CAAGACAGAAAGTTTCTCGCTACGACGAAAATCAAATTTGGCTGCGACGAGAATAATGACTCCCA
AGACAAAAAGTTTCTCACTGCAGCAAAAATCAATTTGGCTGCGGCGAGAACAGTGACTCC
Found at i:13467674 original size:2 final size:2
Alignment explanation
Indices: 13467667--13467751 Score: 152
Period size: 2 Copynumber: 42.5 Consensus size: 2
13467657 TTTATGTGTT
13467667 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
**
13467709 TA TA CN TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
13467751 T
1 T
13467752 CCATAGATAA
Statistics
Matches: 79, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 79 1.00
ACGTcount: A:0.48, C:0.01, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:13467927 original size:35 final size:36
Alignment explanation
Indices: 13467846--13467932 Score: 97
Period size: 36 Copynumber: 2.4 Consensus size: 36
13467836 TCAATCCAAC
* * *
13467846 TCATGTGCACGCCCACACCGTACATAGCAAATGTCA
1 TCATGTGCACTCCCACACCGCACACAGCAAATGTCA
* *
13467882 TCATGTGCACTCCCACACTGCACACGGCAAAAT-T-A
1 TCATGTGCACTCCCACACCGCACACAGC-AAATGTCA
*
13467917 TCATGTGCACTTCCAC
1 TCATGTGCACTCCCAC
13467933 GCCACATCAC
Statistics
Matches: 44, Mismatches: 6, Indels: 3
0.83 0.11 0.06
Matches are distributed among these distances:
35 16 0.36
36 24 0.55
37 4 0.09
ACGTcount: A:0.29, C:0.34, G:0.15, T:0.22
Consensus pattern (36 bp):
TCATGTGCACTCCCACACCGCACACAGCAAATGTCA
Found at i:13469253 original size:15 final size:15
Alignment explanation
Indices: 13469233--13469284 Score: 54
Period size: 15 Copynumber: 3.5 Consensus size: 15
13469223 ACTGTGAAAA
13469233 TTATTTTTATTATAT
1 TTATTTTTATTATAT
13469248 TTA-TTTTATTAGTAT
1 TTATTTTTATTA-TAT
* *
13469263 ATATTATTTATT-TAC
1 TTATT-TTTATTATAT
13469278 TTATTTT
1 TTATTTT
13469285 ACTTACTTAG
Statistics
Matches: 31, Mismatches: 3, Indels: 7
0.76 0.07 0.17
Matches are distributed among these distances:
14 10 0.32
15 14 0.45
16 1 0.03
17 6 0.19
ACGTcount: A:0.27, C:0.02, G:0.02, T:0.69
Consensus pattern (15 bp):
TTATTTTTATTATAT
Found at i:13469272 original size:17 final size:17
Alignment explanation
Indices: 13469232--13469274 Score: 54
Period size: 17 Copynumber: 2.6 Consensus size: 17
13469222 TACTGTGAAA
*
13469232 ATTATTT-TTATTATAT
1 ATTATTTATTAGTATAT
13469248 -TTATTTTATTAGTATAT
1 ATTA-TTTATTAGTATAT
13469265 ATTATTTATT
1 ATTATTTATT
13469275 TACTTATTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 5
0.79 0.03 0.17
Matches are distributed among these distances:
15 3 0.13
16 3 0.13
17 14 0.61
18 3 0.13
ACGTcount: A:0.30, C:0.00, G:0.02, T:0.67
Consensus pattern (17 bp):
ATTATTTATTAGTATAT
Found at i:13470440 original size:35 final size:36
Alignment explanation
Indices: 13470370--13470442 Score: 87
Period size: 35 Copynumber: 2.1 Consensus size: 36
13470360 TTGGCGGAGA
* *
13470370 AACAAATCACGCACAGCGTCAAAGCAACTGACAGAG
1 AACAAATCACACACAGCGTCAAAGCAACAGACAGAG
**
13470406 AACAAATCACACA-AGCGTTGAAGCAACA-AGCAGAG
1 AACAAATCACACACAGCGTCAAAGCAACAGA-CAGAG
13470441 AA
1 AA
13470443 TTAGAATCAT
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
34 1 0.03
35 19 0.59
36 12 0.38
ACGTcount: A:0.48, C:0.25, G:0.19, T:0.08
Consensus pattern (36 bp):
AACAAATCACACACAGCGTCAAAGCAACAGACAGAG
Found at i:13474115 original size:381 final size:382
Alignment explanation
Indices: 13473390--13474156 Score: 1509
Period size: 381 Copynumber: 2.0 Consensus size: 382
13473380 GGGGGGGGGG
13473390 GTAATGGAGACGTTGATGCAAAACTAGTAGTGGTGGAGAGATGATTGTTATGGAATTTTCAAGAT
1 GTAATGGAGACGTTGATGCAAAACTAGTAGTGGTGGAGAGATGATTGTTATGGAATTTTCAAGAT
13473455 CAAAATGGCTAATGTATATTGAACTTTTTCTTTTTAGTTATTTGTTGTGGCCTATCATTTTCAAG
66 CAAAATGGCTAATGTATATTGAACTTTTTCTTTTTAGTTATTTGTTGTGGCCTATCATTTTCAAG
13473520 CTTTAGAATTCTCATTTCCACCGTCAAATATTTTAAAACCAAATAATCAATCAACAGATTATATT
131 CTTTAGAATTCTCATTTCCACCGTCAAATATTTTAAAACCAAATAATCAATCAACAGATTATATT
13473585 ATTTATCTATCTATAATTTATATAAGATTTGTGAAGCACTAATTTATATAGATTTTTTTCCAACA
196 ATTTATCTATCTATAATTTATATAAGATTTGTGAAGCACTAATTTATATAGATTTTTTTCCAACA
13473650 TCATCATCTATTATATTTTAAATTGTAATTTAAAGCAACTATTTTTATTTTTTTTAAATATTGTT
261 TCATCATCTATTATATTTTAAATTGTAATTTAAAGCAACTATTTTTATTTTTTTTAAATATTGTT
13473715 GGAAATCAATTTTTGGTATAATTTTTAATTTTGAAATTTTCTTTCTAGCAATTCAAT
326 GGAAATCAATTTTTGGTATAATTTTTAATTTTGAAATTTTCTTTCTAGCAATTCAAT
13473772 GTAATGGAGACGTTGATGCAAAACTAGTAGTGGTGGAGAGATGATTGTTATGGAATTTTCAAGAT
1 GTAATGGAGACGTTGATGCAAAACTAGTAGTGGTGGAGAGATGATTGTTATGGAATTTTCAAGAT
13473837 CAAAATGGCTAATGTATATTGAACTTTTTCTTTTTAGTTATTTGTTGTGGCCTATCATTTTCAAG
66 CAAAATGGCTAATGTATATTGAACTTTTTCTTTTTAGTTATTTGTTGTGGCCTATCATTTTCAAG
* *
13473902 CTTTAGAATTCTCATTTCCATCGTCAAATATTTTAAAA-CAAATAATCAATCAACATATTATATT
131 CTTTAGAATTCTCATTTCCACCGTCAAATATTTTAAAACCAAATAATCAATCAACAGATTATATT
13473966 ATTTATCTATCTATAATTTATATAAGATTTGTGAAGCACTAATTTATATAGATTTTTTTCCAACA
196 ATTTATCTATCTATAATTTATATAAGATTTGTGAAGCACTAATTTATATAGATTTTTTTCCAACA
13474031 TCATCATCTATTATATTTTAAATTGTAATTTAAAGCAACTATTTTTATTTTTTTTAAATATTGTT
261 TCATCATCTATTATATTTTAAATTGTAATTTAAAGCAACTATTTTTATTTTTTTTAAATATTGTT
13474096 GGAAATCAATTTTTGGTATAATTTTTAATTTTGAAATTTTCTTTCTAGCAATTCAAT
326 GGAAATCAATTTTTGGTATAATTTTTAATTTTGAAATTTTCTTTCTAGCAATTCAAT
13474153 GTAA
1 GTAA
13474157 ATTAAAATTA
Statistics
Matches: 383, Mismatches: 2, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
381 216 0.56
382 167 0.44
ACGTcount: A:0.33, C:0.11, G:0.12, T:0.44
Consensus pattern (382 bp):
GTAATGGAGACGTTGATGCAAAACTAGTAGTGGTGGAGAGATGATTGTTATGGAATTTTCAAGAT
CAAAATGGCTAATGTATATTGAACTTTTTCTTTTTAGTTATTTGTTGTGGCCTATCATTTTCAAG
CTTTAGAATTCTCATTTCCACCGTCAAATATTTTAAAACCAAATAATCAATCAACAGATTATATT
ATTTATCTATCTATAATTTATATAAGATTTGTGAAGCACTAATTTATATAGATTTTTTTCCAACA
TCATCATCTATTATATTTTAAATTGTAATTTAAAGCAACTATTTTTATTTTTTTTAAATATTGTT
GGAAATCAATTTTTGGTATAATTTTTAATTTTGAAATTTTCTTTCTAGCAATTCAAT
Found at i:13486607 original size:32 final size:32
Alignment explanation
Indices: 13486563--13486628 Score: 87
Period size: 32 Copynumber: 2.1 Consensus size: 32
13486553 GTCAAACCAA
* * *
13486563 ACCCAAACCCAAAATAACTTCAACCCAAGATG
1 ACCCAAACCCAAAACAACTGCAACCCAAAATG
* *
13486595 ACCCAAATCCAAAACAACTGGAACCCAAAATG
1 ACCCAAACCCAAAACAACTGCAACCCAAAATG
13486627 AC
1 AC
13486629 ATAAACCCGA
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
32 29 1.00
ACGTcount: A:0.48, C:0.33, G:0.08, T:0.11
Consensus pattern (32 bp):
ACCCAAACCCAAAACAACTGCAACCCAAAATG
Found at i:13487161 original size:2 final size:2
Alignment explanation
Indices: 13487154--13487188 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
13487144 TATAATCATT
13487154 AC AC AC 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 AC AC AC A
13487189 TATATAGTGT
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.49, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:13501316 original size:91 final size:91
Alignment explanation
Indices: 13501205--13501399 Score: 327
Period size: 91 Copynumber: 2.1 Consensus size: 91
13501195 GCACTGAAGA
* *
13501205 ACATCTATGGATAGATGGCTAGATCTATCCATAGATGGCCCCATCTATCGATAGATAGCAACCAA
1 ACATCTATAGATAGATGGCTAAATCTATCCATAGATGGCCCCATCTATCGATAGATAGCAACCAA
*
13501270 AAGGCCTTTTAATAAAGCCTCGAAAG
66 AAGGCCTTTTAATAAAGCCCCGAAAG
*
13501296 ACATCTATAGATTGATGGCTAAATCTATCCATAGATGGCCCCATCTATCGATAGATAGCAACCAA
1 ACATCTATAGATAGATGGCTAAATCTATCCATAGATGGCCCCATCTATCGATAGATAGCAACCAA
*
13501361 AGGGCCTTTTAATAAAGCCCCGAAAG
66 AAGGCCTTTTAATAAAGCCCCGAAAG
* *
13501387 ATATCTATTGATA
1 ACATCTATAGATA
13501400 CATAGTCTTA
Statistics
Matches: 96, Mismatches: 8, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
91 96 1.00
ACGTcount: A:0.35, C:0.22, G:0.17, T:0.26
Consensus pattern (91 bp):
ACATCTATAGATAGATGGCTAAATCTATCCATAGATGGCCCCATCTATCGATAGATAGCAACCAA
AAGGCCTTTTAATAAAGCCCCGAAAG
Found at i:13508622 original size:55 final size:55
Alignment explanation
Indices: 13508561--13508769 Score: 337
Period size: 55 Copynumber: 3.8 Consensus size: 55
13508551 TGATGACGGG
* *
13508561 TGATTCCAACTATGTGCAGTGTGGGAGTGCACATGTGATGATGATCAGTGGATGA
1 TGATTCCAACTATGTGCGGTGTGGGAGTGCACATGAGATGATGATCAGTGGATGA
*
13508616 TGATTCCAGCTATGTGCGGTGTGGGAGTGCACATGAGATGATGATCAGTGGATGA
1 TGATTCCAACTATGTGCGGTGTGGGAGTGCACATGAGATGATGATCAGTGGATGA
* * * * *
13508671 TGATTCCAGCTATGTGCGGTGTGGGAGTGCACATGAGTTGTTGACCGGTGGATGA
1 TGATTCCAACTATGTGCGGTGTGGGAGTGCACATGAGATGATGATCAGTGGATGA
*
13508726 TGATTCCAACTATGTGCGGTGTGGGAGTGCACATGAGCTGATGA
1 TGATTCCAACTATGTGCGGTGTGGGAGTGCACATGAGATGATGA
13508770 GTCGGTGGTT
Statistics
Matches: 144, Mismatches: 10, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
55 144 1.00
ACGTcount: A:0.22, C:0.14, G:0.35, T:0.28
Consensus pattern (55 bp):
TGATTCCAACTATGTGCGGTGTGGGAGTGCACATGAGATGATGATCAGTGGATGA
Found at i:13513043 original size:17 final size:18
Alignment explanation
Indices: 13513010--13513047 Score: 60
Period size: 17 Copynumber: 2.2 Consensus size: 18
13513000 GGCATAAATA
13513010 TCTAAGTTTCTAGCAACT
1 TCTAAGTTTCTAGCAACT
*
13513028 TCTAATTTTC-AGCAACT
1 TCTAAGTTTCTAGCAACT
13513045 TCT
1 TCT
13513048 TCTTCTTCCC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.53
18 9 0.47
ACGTcount: A:0.26, C:0.24, G:0.08, T:0.42
Consensus pattern (18 bp):
TCTAAGTTTCTAGCAACT
Found at i:13513983 original size:43 final size:43
Alignment explanation
Indices: 13513848--13513985 Score: 199
Period size: 43 Copynumber: 3.2 Consensus size: 43
13513838 TGTGATAATT
*
13513848 ATGACCCAGCCATGTGCGATGTAGGAGTGCACATGAGCTGA-G
1 ATGACCTAGCCATGTGCGATGTAGGAGTGCACATGAGCTGATG
* * * *
13513890 AATGACCAAGCTATATGCGATGTAGGAGTGCACATGAGCTAATG
1 -ATGACCTAGCCATGTGCGATGTAGGAGTGCACATGAGCTGATG
13513934 ATGACCTAGCCATGTGC-AGTGTAGGAGTGCACATGAGCTGATG
1 ATGACCTAGCCATGTGCGA-TGTAGGAGTGCACATGAGCTGATG
13513977 ATGACCTAG
1 ATGACCTAG
13513986 TTGAGGGAGA
Statistics
Matches: 85, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
42 1 0.01
43 83 0.98
44 1 0.01
ACGTcount: A:0.29, C:0.19, G:0.30, T:0.22
Consensus pattern (43 bp):
ATGACCTAGCCATGTGCGATGTAGGAGTGCACATGAGCTGATG
Found at i:13517917 original size:74 final size:73
Alignment explanation
Indices: 13517832--13518024 Score: 269
Period size: 74 Copynumber: 2.6 Consensus size: 73
13517822 CAAACAACCA
* *
13517832 GAGAGTTTCTTGCTGTAGCGAGAATGCATTTTCGCTGCAGCGAAAATTCGAGCAGGCATTTTACC
1 GAGAG-TTCTTGCTGTAGCGAGAATGCATTTTCGCTGCAGCGAAAATCCGAGCAAGCATTTTACC
**
13517897 CAACCACTT
65 CAACCACCC
* *
13517906 GAGAGTCTCTTGTTGTAGCGAGAATGCATTTTCACTGCAGCGAAAATCCGAGCAAGCATTTTACC
1 GAGAGT-TCTTGCTGTAGCGAGAATGCATTTTCGCTGCAGCGAAAATCCGAGCAAGCATTTTACC
13517971 CAACCACCC
65 CAACCACCC
* * * *
13517980 GAGAGTTTTTCGCTGCAGCGAGAATGCATTTTTGCTGCAGTGAAA
1 GAGAGTTCTT-GCTGTAGCGAGAATGCATTTTCGCTGCAGCGAAA
13518025 TTCTGGACTA
Statistics
Matches: 105, Mismatches: 12, Indels: 4
0.87 0.10 0.03
Matches are distributed among these distances:
73 4 0.04
74 101 0.96
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.27
Consensus pattern (73 bp):
GAGAGTTCTTGCTGTAGCGAGAATGCATTTTCGCTGCAGCGAAAATCCGAGCAAGCATTTTACCC
AACCACCC
Found at i:13518356 original size:35 final size:36
Alignment explanation
Indices: 13518308--13518390 Score: 98
Period size: 35 Copynumber: 2.3 Consensus size: 36
13518298 CATAGCTAAA
* * *
13518308 ATCATCCTATGCACTCCCACA-CTGCACAAGGCA-AT
1 ATCATCATGTGCACTCCCACATC-GCACAAGGCATAC
*
13518343 ATCATCATGTGCACTCCCACATCGCACATGGCATAC
1 ATCATCATGTGCACTCCCACATCGCACAAGGCATAC
13518379 ATCATCAATGTG
1 ATCATC-ATGTG
13518391 TGCACTCACA
Statistics
Matches: 41, Mismatches: 4, Indels: 4
0.84 0.08 0.08
Matches are distributed among these distances:
35 28 0.68
36 8 0.20
37 5 0.12
ACGTcount: A:0.30, C:0.34, G:0.13, T:0.23
Consensus pattern (36 bp):
ATCATCATGTGCACTCCCACATCGCACAAGGCATAC
Found at i:13527261 original size:61 final size:61
Alignment explanation
Indices: 13527166--13527289 Score: 239
Period size: 61 Copynumber: 2.0 Consensus size: 61
13527156 AGTGATAGCT
13527166 TCCGAGGAAGAACATGTTTCTGAGAAACACCAGCCCTCACCTAATAGAGAGGAGATATCCA
1 TCCGAGGAAGAACATGTTTCTGAGAAACACCAGCCCTCACCTAATAGAGAGGAGATATCCA
*
13527227 TCCGAGGAAGAACATGTTTCTGAGAAACACCAGCCCTCACTTAATAGAGAGGAGATATCCA
1 TCCGAGGAAGAACATGTTTCTGAGAAACACCAGCCCTCACCTAATAGAGAGGAGATATCCA
13527288 TC
1 TC
13527290 ATGGAAATCT
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
61 62 1.00
ACGTcount: A:0.35, C:0.24, G:0.21, T:0.19
Consensus pattern (61 bp):
TCCGAGGAAGAACATGTTTCTGAGAAACACCAGCCCTCACCTAATAGAGAGGAGATATCCA
Found at i:13537900 original size:42 final size:41
Alignment explanation
Indices: 13537832--13538166 Score: 440
Period size: 42 Copynumber: 8.0 Consensus size: 41
13537822 TGTTGATGTG
13537832 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
1 GACCC-GCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
* *
13537874 GACTCTGCTATGTGTGAGT-GGTAGTGCACATAAGCCGTTGCT
1 GAC-CCGCTATGTGCGAGTAGG-AGTGCACATAAGCCGTTGCT
13537916 GACCCGACTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
1 GACCCG-CTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
*
13537958 GACCCAGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCC
1 GACCC-GCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
* * *
13538000 AACCCGACTATGTGTGAG-CGAGAGTGCACATAAGCCGTTGCT
1 GACCCG-CTATGTGCGAGTAG-GAGTGCACATAAGCCGTTGCT
* * *
13538042 AACCTGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGTT
1 GACC-CGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
*
13538084 GACCCGACTATGTGCGAGTAGGAGTGCACATAAGCCGTTGTT
1 GACCCG-CTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
* * * *
13538126 GACCTGGCTATGTGCGAGTGGGAGTACGCATAAGCCGTTGC
1 GACC-CGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGC
13538167 ATATGAGATG
Statistics
Matches: 262, Mismatches: 20, Indels: 22
0.86 0.07 0.07
Matches are distributed among these distances:
41 7 0.03
42 248 0.95
43 7 0.03
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (41 bp):
GACCCGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
Found at i:13537984 original size:84 final size:84
Alignment explanation
Indices: 13537832--13538166 Score: 485
Period size: 84 Copynumber: 4.0 Consensus size: 84
13537822 TGTTGATGTG
* * * *
13537832 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTGACTCTGCTATGTGTGAGT-GGT
1 GACCCGACTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTGACCCGGCTATGTGCGAGTAGG-
13537896 AGTGCACATAAGCCGTTGCT
65 AGTGCACATAAGCCGTTGCT
*
13537916 GACCCGACTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTGACCCAGCTATGTGCGAGTAGGA
1 GACCCGACTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTGACCCGGCTATGTGCGAGTAGGA
*
13537981 GTGCACATAAGCCGTTGCC
66 GTGCACATAAGCCGTTGCT
* * * * *
13538000 AACCCGACTATGTGTGAG-CGAGAGTGCACATAAGCCGTTGCTAACCTGGCTATGTGCGAGTAGG
1 GACCCGACTATGTGCGAGTAG-GAGTGCACATAAGCCGTTGCTGACCCGGCTATGTGCGAGTAGG
*
13538064 AGTGCACATAAGCCGTTGTT
65 AGTGCACATAAGCCGTTGCT
* * *
13538084 GACCCGACTATGTGCGAGTAGGAGTGCACATAAGCCGTTGTTGACCTGGCTATGTGCGAGTGGGA
1 GACCCGACTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTGACCCGGCTATGTGCGAGTAGGA
* *
13538149 GTACGCATAAGCCGTTGC
66 GTGCACATAAGCCGTTGC
13538167 ATATGAGATG
Statistics
Matches: 226, Mismatches: 22, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
83 1 0.00
84 222 0.98
85 3 0.01
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (84 bp):
GACCCGACTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTGACCCGGCTATGTGCGAGTAGGA
GTGCACATAAGCCGTTGCT
Found at i:13538137 original size:126 final size:125
Alignment explanation
Indices: 13537832--13538166 Score: 485
Period size: 126 Copynumber: 2.7 Consensus size: 125
13537822 TGTTGATGTG
*
13537832 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTGACTCT-GCTATGTGTGAGTGGT
1 GACCCGACTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTGAC-CTGGCTATGTGTGAGTGG-
*
13537896 AGTGCACATAAGCCGTTGCTGACCCGACTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
64 AGTGCACATAAGCCGTTGCTAACCCGACTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
** * * *
13537958 GACCC-AGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCCAACCCGACTATGTGTGAGCGAG
1 GACCCGA-CTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTGACCTGGCTATGTGTGAGTG-G
* * *
13538022 AGTGCACATAAGCCGTTGCTAACCTGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGTT
64 AGTGCACATAAGCCGTTGCTAACCCGACTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
* *
13538084 GACCCGACTATGTGCGAGTAGGAGTGCACATAAGCCGTTGTTGACCTGGCTATGTGCGAGTGGGA
1 GACCCGACTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTGACCTGGCTATGTGTGAGT-GGA
* *
13538149 GTACGCATAAGCCGTTGC
65 GTGCACATAAGCCGTTGC
13538167 ATATGAGATG
Statistics
Matches: 185, Mismatches: 19, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
125 1 0.01
126 181 0.98
127 3 0.02
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (125 bp):
GACCCGACTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTGACCTGGCTATGTGTGAGTGGAG
TGCACATAAGCCGTTGCTAACCCGACTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
Found at i:13538217 original size:2 final size:2
Alignment explanation
Indices: 13538210--13538234 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
13538200 ATGATGATTG
13538210 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
13538235 NNNNNNNNNN
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:13540245 original size:60 final size:60
Alignment explanation
Indices: 13540086--13540250 Score: 201
Period size: 60 Copynumber: 2.8 Consensus size: 60
13540076 TAGGAGACCA
* * * * * * *
13540086 AAACATAAGGTTTTTCGCTGCAGCGAGATTGAATCTCGCTGCAGCAAAATTGTAACCCAG
1 AAACAGAAAGTTTCTCGCTGCAGCGAGAATGTATCTCGCTGTAGCAAAATTGCAACCCAG
*
13540146 AAACAGAATA-TTTCTAGCTGCAGCGA-AAT-TCAATCTCGCTGTAGCAAAATTGCAACCCAG
1 AAACAGAA-AGTTTCTCGCTGCAGCGAGAATGT--ATCTCGCTGTAGCAAAATTGCAACCCAG
*
13540206 AAACAGAAAGTTTCTCGCTGCAGCGAGAATGTATTTCGCTGTAGC
1 AAACAGAAAGTTTCTCGCTGCAGCGAGAATGTATCTCGCTGTAGC
13540251 GAGAAGCTAC
Statistics
Matches: 89, Mismatches: 10, Indels: 12
0.80 0.09 0.11
Matches are distributed among these distances:
59 3 0.03
60 82 0.92
61 3 0.03
62 1 0.01
ACGTcount: A:0.33, C:0.22, G:0.21, T:0.25
Consensus pattern (60 bp):
AAACAGAAAGTTTCTCGCTGCAGCGAGAATGTATCTCGCTGTAGCAAAATTGCAACCCAG
Found at i:13540669 original size:43 final size:43
Alignment explanation
Indices: 13540621--13540730 Score: 143
Period size: 43 Copynumber: 2.6 Consensus size: 43
13540611 TCACCAGCTC
* * ** *
13540621 ATGCGCACTCCCTACTCTCACATGGATGA-GTCATCAC-CGGGTT
1 ATGCGCACTCCCTACTCGCACAT-AACCAGGTCATC-CTCGGCTT
13540664 ATGCGCACTCCCTACTCGCACATAACCAGGTCATCCTCGGCTT
1 ATGCGCACTCCCTACTCGCACATAACCAGGTCATCCTCGGCTT
13540707 ATGCGCACTCCCTACTCGCACATA
1 ATGCGCACTCCCTACTCGCACATA
13540731 GCCGAGTCAA
Statistics
Matches: 60, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
42 3 0.05
43 57 0.95
ACGTcount: A:0.22, C:0.37, G:0.17, T:0.24
Consensus pattern (43 bp):
ATGCGCACTCCCTACTCGCACATAACCAGGTCATCCTCGGCTT
Found at i:13541564 original size:19 final size:21
Alignment explanation
Indices: 13541525--13541568 Score: 65
Period size: 19 Copynumber: 2.2 Consensus size: 21
13541515 AGGGAAGAAG
13541525 AAGACAGCTGCTAGAAATTTC
1 AAGACAGCTGCTAGAAATTTC
*
13541546 AAGA-AGCTGCT-GGAATTTC
1 AAGACAGCTGCTAGAAATTTC
13541565 AAGA
1 AAGA
13541569 TATTTATAGG
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 11 0.50
20 7 0.32
21 4 0.18
ACGTcount: A:0.39, C:0.16, G:0.23, T:0.23
Consensus pattern (21 bp):
AAGACAGCTGCTAGAAATTTC
Found at i:13544308 original size:42 final size:41
Alignment explanation
Indices: 13544240--13544574 Score: 440
Period size: 42 Copynumber: 8.0 Consensus size: 41
13544230 TGTTGATGTG
13544240 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
1 GACCC-GCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
* *
13544282 GACTCTGCTATGTGTGAGT-GGTAGTGCACATAAGCCGTTGCT
1 GAC-CCGCTATGTGCGAGTAGG-AGTGCACATAAGCCGTTGCT
13544324 GACCCGACTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
1 GACCCG-CTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
*
13544366 GACCCAGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCC
1 GACCC-GCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
* * *
13544408 AACCCGACTATGTGTGAG-CGAGAGTGCACATAAGCCGTTGCT
1 GACCCG-CTATGTGCGAGTAG-GAGTGCACATAAGCCGTTGCT
* * *
13544450 AACCTGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGTT
1 GACC-CGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
*
13544492 GACCCGACTATGTGCGAGTAGGAGTGCACATAAGCCGTTGTT
1 GACCCG-CTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
* * * *
13544534 GACCTGGCTATGTGCGAGTGGGAGTACGCATAAGCCGTTGC
1 GACC-CGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGC
13544575 ATATGAGATG
Statistics
Matches: 262, Mismatches: 20, Indels: 22
0.86 0.07 0.07
Matches are distributed among these distances:
41 7 0.03
42 248 0.95
43 7 0.03
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (41 bp):
GACCCGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
Found at i:13544392 original size:84 final size:84
Alignment explanation
Indices: 13544240--13544574 Score: 485
Period size: 84 Copynumber: 4.0 Consensus size: 84
13544230 TGTTGATGTG
* * * *
13544240 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTGACTCTGCTATGTGTGAGT-GGT
1 GACCCGACTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTGACCCGGCTATGTGCGAGTAGG-
13544304 AGTGCACATAAGCCGTTGCT
65 AGTGCACATAAGCCGTTGCT
*
13544324 GACCCGACTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTGACCCAGCTATGTGCGAGTAGGA
1 GACCCGACTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTGACCCGGCTATGTGCGAGTAGGA
*
13544389 GTGCACATAAGCCGTTGCC
66 GTGCACATAAGCCGTTGCT
* * * * *
13544408 AACCCGACTATGTGTGAG-CGAGAGTGCACATAAGCCGTTGCTAACCTGGCTATGTGCGAGTAGG
1 GACCCGACTATGTGCGAGTAG-GAGTGCACATAAGCCGTTGCTGACCCGGCTATGTGCGAGTAGG
*
13544472 AGTGCACATAAGCCGTTGTT
65 AGTGCACATAAGCCGTTGCT
* * *
13544492 GACCCGACTATGTGCGAGTAGGAGTGCACATAAGCCGTTGTTGACCTGGCTATGTGCGAGTGGGA
1 GACCCGACTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTGACCCGGCTATGTGCGAGTAGGA
* *
13544557 GTACGCATAAGCCGTTGC
66 GTGCACATAAGCCGTTGC
13544575 ATATGAGATG
Statistics
Matches: 226, Mismatches: 22, Indels: 6
0.89 0.09 0.02
Matches are distributed among these distances:
83 1 0.00
84 222 0.98
85 3 0.01
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (84 bp):
GACCCGACTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTGACCCGGCTATGTGCGAGTAGGA
GTGCACATAAGCCGTTGCT
Found at i:13544545 original size:126 final size:125
Alignment explanation
Indices: 13544240--13544574 Score: 485
Period size: 126 Copynumber: 2.7 Consensus size: 125
13544230 TGTTGATGTG
*
13544240 GACCCGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTGACTCT-GCTATGTGTGAGTGGT
1 GACCCGACTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTGAC-CTGGCTATGTGTGAGTGG-
*
13544304 AGTGCACATAAGCCGTTGCTGACCCGACTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
64 AGTGCACATAAGCCGTTGCTAACCCGACTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
** * * *
13544366 GACCC-AGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCCAACCCGACTATGTGTGAGCGAG
1 GACCCGA-CTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTGACCTGGCTATGTGTGAGTG-G
* * *
13544430 AGTGCACATAAGCCGTTGCTAACCTGGCTATGTGCGAGTAGGAGTGCACATAAGCCGTTGTT
64 AGTGCACATAAGCCGTTGCTAACCCGACTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
* *
13544492 GACCCGACTATGTGCGAGTAGGAGTGCACATAAGCCGTTGTTGACCTGGCTATGTGCGAGTGGGA
1 GACCCGACTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTGACCTGGCTATGTGTGAGT-GGA
* *
13544557 GTACGCATAAGCCGTTGC
65 GTGCACATAAGCCGTTGC
13544575 ATATGAGATG
Statistics
Matches: 185, Mismatches: 19, Indels: 10
0.86 0.09 0.05
Matches are distributed among these distances:
125 1 0.01
126 181 0.98
127 3 0.02
ACGTcount: A:0.23, C:0.22, G:0.32, T:0.23
Consensus pattern (125 bp):
GACCCGACTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCTGACCTGGCTATGTGTGAGTGGAG
TGCACATAAGCCGTTGCTAACCCGACTATGTGCGAGTAGGAGTGCACATAAGCCGTTGCT
Found at i:13544625 original size:2 final size:2
Alignment explanation
Indices: 13544618--13544649 Score: 55
Period size: 2 Copynumber: 16.0 Consensus size: 2
13544608 ATGATGATTG
*
13544618 AT AT AT AT AT AT AT AT AT AT AT AT AC AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
13544650 GGTATATGGT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (2 bp):
AT
Found at i:13548878 original size:25 final size:26
Alignment explanation
Indices: 13548850--13548905 Score: 71
Period size: 25 Copynumber: 2.2 Consensus size: 26
13548840 TTATGGGCTC
13548850 TGCCCAATT-TCTTCCTATTAGGCCA
1 TGCCCAATTCTCTTCCTATTAGGCCA
* * *
13548875 TGCCC-ATTCTTTTCTTATTGGGCCA
1 TGCCCAATTCTCTTCCTATTAGGCCA
13548900 TGCCCA
1 TGCCCA
13548906 CTCTTTTTTT
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
24 3 0.12
25 23 0.88
ACGTcount: A:0.16, C:0.32, G:0.14, T:0.38
Consensus pattern (26 bp):
TGCCCAATTCTCTTCCTATTAGGCCA
Found at i:13548910 original size:25 final size:25
Alignment explanation
Indices: 13548865--13548912 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
13548855 AATTTCTTCC
*
13548865 TATTAGGCCATGCCCATTCTTTTCT
1 TATTAGGCCATGCCCACTCTTTTCT
*
13548890 TATTGGGCCATGCCCACTCTTTT
1 TATTAGGCCATGCCCACTCTTTT
13548913 TTTTTCTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.15, C:0.29, G:0.15, T:0.42
Consensus pattern (25 bp):
TATTAGGCCATGCCCACTCTTTTCT
Found at i:13548931 original size:13 final size:12
Alignment explanation
Indices: 13548909--13548943 Score: 52
Period size: 13 Copynumber: 2.8 Consensus size: 12
13548899 ATGCCCACTC
13548909 TTTTTTTTTCTT
1 TTTTTTTTTCTT
13548921 TTTTCTTTTTCTT
1 TTTT-TTTTTCTT
13548934 TTCTTTTTTT
1 TT-TTTTTTT
13548944 TTCCTCTTCT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
12 4 0.19
13 15 0.71
14 2 0.10
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (12 bp):
TTTTTTTTTCTT
Found at i:13548935 original size:18 final size:17
Alignment explanation
Indices: 13548907--13548942 Score: 63
Period size: 18 Copynumber: 2.1 Consensus size: 17
13548897 CCATGCCCAC
13548907 TCTTTTTTTTTCTTTTT
1 TCTTTTTTTTTCTTTTT
13548924 TCTTTTTCTTTTCTTTTT
1 TCTTTTT-TTTTCTTTTT
13548942 T
1 T
13548943 TTTCCTCTTC
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.00, C:0.14, G:0.00, T:0.86
Consensus pattern (17 bp):
TCTTTTTTTTTCTTTTT
Found at i:13548951 original size:18 final size:18
Alignment explanation
Indices: 13548914--13548951 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
13548904 CACTCTTTTT
*
13548914 TTTTCTTTTTTCTTTTTC
1 TTTTCTTTTTTCTTTCTC
13548932 TTTTCTTTTTT-TTTCCTC
1 TTTTCTTTTTTCTTT-CTC
13548950 TT
1 TT
13548952 CTCCTCCCGT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
17 3 0.17
18 15 0.83
ACGTcount: A:0.00, C:0.18, G:0.00, T:0.82
Consensus pattern (18 bp):
TTTTCTTTTTTCTTTCTC
Found at i:13548981 original size:30 final size:30
Alignment explanation
Indices: 13548947--13549014 Score: 97
Period size: 30 Copynumber: 2.3 Consensus size: 30
13548937 TTTTTTTTTC
13548947 CTCTTCTCCTCCCGT-CGGCCTTCCTTATCT
1 CTCTTCTCCTCCC-TCCGGCCTTCCTTATCT
*
13548977 CTCTTCTCCTCCCTCCGGCCTTCCTTCTCT
1 CTCTTCTCCTCCCTCCGGCCTTCCTTATCT
13549007 C-CTT-TCCT
1 CTCTTCTCCT
13549015 TTCCTTTCTT
Statistics
Matches: 36, Mismatches: 1, Indels: 4
0.88 0.02 0.10
Matches are distributed among these distances:
28 4 0.11
29 4 0.11
30 28 0.78
ACGTcount: A:0.01, C:0.50, G:0.07, T:0.41
Consensus pattern (30 bp):
CTCTTCTCCTCCCTCCGGCCTTCCTTATCT
Found at i:13549053 original size:49 final size:49
Alignment explanation
Indices: 13548981--13549146 Score: 172
Period size: 56 Copynumber: 3.1 Consensus size: 49
13548971 TTATCTCTCT
13548981 TCTCCTCCC-TCCGGCCTTCCTTCTCTCCTTTCCTTTCCTTTCTTCTTTC
1 TCTCCTCCCGT-CGGCCTTCCTTCTCTCCTTTCCTTTCCTTTCTTCTTTC
* *
13549030 TCTCCTCCCGTCGACCTTTCTTCTCTCTCATTTCCTTCCCTTTCCTTTCTTCTTTCCC
1 TCTCCTCCCGTCGGCC-TTC--CT-TCTC---TCCTTTCCTTTCCTTTCTTCTTT--C
* *
13549088 TTCTCCTCCCGCCGGCCTTCCTTCTCTTTCCTTTCCTTTCCTTTCTGCTTTC
1 -TCTCCTCCCGTCGGCCTTCCTTCTC--TCCTTTCCTTTCCTTTCTTCTTTC
13549140 TCTCCTC
1 TCTCCTC
13549147 TCGCCAGCCT
Statistics
Matches: 100, Mismatches: 6, Indels: 20
0.79 0.05 0.16
Matches are distributed among these distances:
49 13 0.13
50 4 0.04
51 7 0.07
52 3 0.03
53 4 0.04
54 23 0.23
55 4 0.04
56 24 0.24
58 4 0.04
59 14 0.14
ACGTcount: A:0.01, C:0.46, G:0.05, T:0.48
Consensus pattern (49 bp):
TCTCCTCCCGTCGGCCTTCCTTCTCTCCTTTCCTTTCCTTTCTTCTTTC
Found at i:13549094 original size:29 final size:29
Alignment explanation
Indices: 13549004--13549094 Score: 75
Period size: 29 Copynumber: 3.2 Consensus size: 29
13548994 GCCTTCCTTC
*
13549004 TCTCCTTTCCTTTCCTTTCTTCTTT--C-
1 TCTCCTTCCCTTTCCTTTCTTCTTTCCCT
** * *
13549030 TCTCC-TCCCGTCGACCTTTCTTCTCTCTCAT
1 TCTCCTTCCC-T-TTCCTTTCTTCTTTC-CCT
13549061 T-TCCTTCCCTTTCCTTTCTTCTTTCCCT
1 TCTCCTTCCCTTTCCTTTCTTCTTTCCCT
13549089 TCTCCT
1 TCTCCT
13549095 CCCGCCGGCC
Statistics
Matches: 48, Mismatches: 9, Indels: 13
0.69 0.13 0.19
Matches are distributed among these distances:
25 3 0.06
26 6 0.12
27 11 0.23
28 3 0.06
29 16 0.33
30 4 0.08
31 5 0.10
ACGTcount: A:0.02, C:0.43, G:0.02, T:0.53
Consensus pattern (29 bp):
TCTCCTTCCCTTTCCTTTCTTCTTTCCCT
Found at i:13549112 original size:59 final size:56
Alignment explanation
Indices: 13549006--13549151 Score: 176
Period size: 56 Copynumber: 2.6 Consensus size: 56
13548996 CTTCCTTCTC
* *
13549006 TCCTTTCCTTTCCTTTCTTCTTTCTCTCCTCCCGTCGACCTTTCTTCTCTCTCATT
1 TCCTTTCCTTTCCTTTCTTCTTTCTCTCCTCCCGCCGACCTTCCTTCTCTCTCATT
* *
13549062 TCCTTCCCTTTCCTTTCTTCTTTCCCTTCTCCTCCCGCCGGCCTT-C--CT-TCTC-TT
1 TCCTTTCCTTTCCTTTCTTCTTT--C-TCTCCTCCCGCCGACCTTCCTTCTCTCTCATT
* *
13549116 TCCTTTCCTTTCCTTTCTGCTTTCTCTCCTCTCGCC
1 TCCTTTCCTTTCCTTTCTTCTTTCTCTCCTCCCGCC
13549152 AGCCTTTGGT
Statistics
Matches: 81, Mismatches: 6, Indels: 11
0.83 0.06 0.11
Matches are distributed among these distances:
51 11 0.14
52 1 0.01
54 23 0.28
55 4 0.05
56 24 0.30
58 2 0.02
59 16 0.20
ACGTcount: A:0.01, C:0.45, G:0.05, T:0.49
Consensus pattern (56 bp):
TCCTTTCCTTTCCTTTCTTCTTTCTCTCCTCCCGCCGACCTTCCTTCTCTCTCATT
Found at i:13549289 original size:15 final size:15
Alignment explanation
Indices: 13549235--13549294 Score: 72
Period size: 15 Copynumber: 4.2 Consensus size: 15
13549225 GTCACCCTCT
*
13549235 TTTTCTTC-TCTTCC
1 TTTTCTTCTTCTTTC
*
13549249 TTTT-TTTTTCTTT-
1 TTTTCTTCTTCTTTC
*
13549262 ATTTCTTCTTCTTTC
1 TTTTCTTCTTCTTTC
13549277 TTTTCTTCTTCTTTC
1 TTTTCTTCTTCTTTC
13549292 TTT
1 TTT
13549295 GGCCGACACT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
13 5 0.13
14 16 0.42
15 17 0.45
ACGTcount: A:0.02, C:0.23, G:0.00, T:0.75
Consensus pattern (15 bp):
TTTTCTTCTTCTTTC
Found at i:13568642 original size:20 final size:20
Alignment explanation
Indices: 13568617--13568657 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
13568607 TTTTAGACTG
13568617 AAAATTAGTTGGTTAATGGA
1 AAAATTAGTTGGTTAATGGA
13568637 AAAATTAGTTGGTTAATGGA
1 AAAATTAGTTGGTTAATGGA
13568657 A
1 A
13568658 CATATTTCCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.41, C:0.00, G:0.24, T:0.34
Consensus pattern (20 bp):
AAAATTAGTTGGTTAATGGA
Found at i:13588014 original size:39 final size:40
Alignment explanation
Indices: 13587946--13588082 Score: 177
Period size: 39 Copynumber: 3.4 Consensus size: 40
13587936 AAAGATCTTA
* *
13587946 AACATAAACTTAAATAACTAAAAACAAATATCCATACAAC
1 AACATAAACTTAAATAACTAAACACAAATATCCAAACAAC
* * * * *
13587986 GATATAAACTT-AATAACTATACATAAATATCCAAATAAC
1 AACATAAACTTAAATAACTAAACACAAATATCCAAACAAC
* *
13588025 AACATAAACTTAAATAACTAAACACAAAGATCCAAACAAAT
1 AACATAAACTTAAATAACTAAACACAAATATCCAAAC-AAC
13588066 AACATAAACTTAAATAA
1 AACATAAACTTAAATAA
13588083 AAAAAATTAT
Statistics
Matches: 81, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
39 32 0.40
40 30 0.37
41 19 0.23
ACGTcount: A:0.59, C:0.18, G:0.01, T:0.22
Consensus pattern (40 bp):
AACATAAACTTAAATAACTAAACACAAATATCCAAACAAC
Found at i:13588555 original size:15 final size:16
Alignment explanation
Indices: 13588535--13588566 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
13588525 ATTACAATTA
13588535 ATAATTTTATAA-GTT
1 ATAATTTTATAATGTT
13588550 ATAATTTTATAATGTT
1 ATAATTTTATAATGTT
13588566 A
1 A
13588567 ACATAAAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 12 0.75
16 4 0.25
ACGTcount: A:0.41, C:0.00, G:0.06, T:0.53
Consensus pattern (16 bp):
ATAATTTTATAATGTT
Found at i:13593509 original size:21 final size:21
Alignment explanation
Indices: 13593480--13593555 Score: 107
Period size: 21 Copynumber: 3.6 Consensus size: 21
13593470 TCAGTCCTTA
*
13593480 TCATAAATGCATCGGTCTTTG
1 TCATGAATGCATCGGTCTTTG
*
13593501 TTATGAATGCATCGGTCTTTG
1 TCATGAATGCATCGGTCTTTG
* *
13593522 TCATGAATGTATCAGTCTTTG
1 TCATGAATGCATCGGTCTTTG
13593543 TCATGAATTGCAT
1 TCATGAA-TGCAT
13593556 AAACAAATCC
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
21 44 0.92
22 4 0.08
ACGTcount: A:0.24, C:0.16, G:0.20, T:0.41
Consensus pattern (21 bp):
TCATGAATGCATCGGTCTTTG
Found at i:13603802 original size:25 final size:25
Alignment explanation
Indices: 13603773--13603836 Score: 69
Period size: 25 Copynumber: 2.6 Consensus size: 25
13603763 TTAATGATGT
13603773 ATTTTATCATA-TTATATGATAATAA
1 ATTTTATCATATTTAT-TGATAATAA
* *
13603798 ATTTTA-CATATGTTATTTATATTAA
1 ATTTTATCATAT-TTATTGATAATAA
*
13603823 ATTTTATTATATTT
1 ATTTTATCATATTT
13603837 GATGTTATTA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
24 4 0.12
25 21 0.64
26 8 0.24
ACGTcount: A:0.38, C:0.03, G:0.03, T:0.56
Consensus pattern (25 bp):
ATTTTATCATATTTATTGATAATAA
Found at i:13604593 original size:22 final size:22
Alignment explanation
Indices: 13604552--13604594 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
13604542 ATTTTTTTTA
*
13604552 TGAAAATTATATAAATAAATTC
1 TGAAAATTATATAAAGAAATTC
13604574 TGAAAATTAT-TCAAAGAAATT
1 TGAAAATTATAT-AAAGAAATT
13604595 AATTTTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 1 0.05
22 18 0.95
ACGTcount: A:0.53, C:0.05, G:0.07, T:0.35
Consensus pattern (22 bp):
TGAAAATTATATAAAGAAATTC
Found at i:13605469 original size:63 final size:64
Alignment explanation
Indices: 13605339--13605469 Score: 138
Period size: 63 Copynumber: 2.1 Consensus size: 64
13605329 TCACCAAATA
* * * *
13605339 AAAAATTATTGTTGGGACAAAATTATAAAATTAAAAAAAAATAAAAATATATTAGAAAAACTTT
1 AAAAATTATTGTAGGGACAAAATTATAAAATTAAAAAAAAATAAAAATAAATTAGAAAAAATCT
* * ** ** ** *
13605403 AAAAATT-TTGTAGGGGCGAAATTATAAAATTTCAAAACTATAAAGCTAAATTATAAAAAATCT
1 AAAAATTATTGTAGGGACAAAATTATAAAATTAAAAAAAAATAAAAATAAATTAGAAAAAATCT
13605466 AAAA
1 AAAA
13605470 TTCTTAGGAG
Statistics
Matches: 54, Mismatches: 13, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
63 47 0.87
64 7 0.13
ACGTcount: A:0.56, C:0.05, G:0.09, T:0.29
Consensus pattern (64 bp):
AAAAATTATTGTAGGGACAAAATTATAAAATTAAAAAAAAATAAAAATAAATTAGAAAAAATCT
Found at i:13607840 original size:21 final size:21
Alignment explanation
Indices: 13607771--13607844 Score: 64
Period size: 21 Copynumber: 3.6 Consensus size: 21
13607761 AGGTTGCTAT
*
13607771 ATATCTATCGATAGATG-CGA
1 ATATCTATCAATAGATGACGA
* *
13607791 CATATCTATC-ATAGAT-AGGC
1 -ATATCTATCAATAGATGACGA
* * *
13607811 TTGTCTATCAATAGATGATGA
1 ATATCTATCAATAGATGACGA
13607832 ATATCTATCAATA
1 ATATCTATCAATA
13607845 TATGTTCTTC
Statistics
Matches: 42, Mismatches: 8, Indels: 6
0.75 0.14 0.11
Matches are distributed among these distances:
19 7 0.17
20 13 0.31
21 22 0.52
ACGTcount: A:0.36, C:0.15, G:0.15, T:0.34
Consensus pattern (21 bp):
ATATCTATCAATAGATGACGA
Found at i:13614305 original size:39 final size:39
Alignment explanation
Indices: 13614254--13614374 Score: 152
Period size: 39 Copynumber: 3.1 Consensus size: 39
13614244 GGTGCCGGTA
*
13614254 ATGTGCGGTGTGGGAGAGCACATGCCGATGACATATGCC
1 ATGTGCGGTGTGGGAGAGCACATGACGATGACATATGCC
* * *
13614293 ATGTGCGATGTGGGAGAGCACATGATGATGATATATGCC
1 ATGTGCGGTGTGGGAGAGCACATGACGATGACATATGCC
* * * * *
13614332 ATGTGCGGTGTGAGACAACACATGATGATGATATATGCAC
1 ATGTGCGGTGTGGGAGAGCACATGACGATGACATATGC-C
13614372 ATG
1 ATG
13614375 ATGATGATAT
Statistics
Matches: 73, Mismatches: 8, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
39 69 0.95
40 4 0.05
ACGTcount: A:0.28, C:0.16, G:0.32, T:0.24
Consensus pattern (39 bp):
ATGTGCGGTGTGGGAGAGCACATGACGATGACATATGCC
Found at i:13614374 original size:19 final size:19
Alignment explanation
Indices: 13614350--13614392 Score: 79
Period size: 19 Copynumber: 2.3 Consensus size: 19
13614340 TGTGAGACAA
13614350 CACATGATGATGATATATG
1 CACATGATGATGATATATG
13614369 CACATGATGATGATATATG
1 CACATGATGATGATATATG
13614388 C-CATG
1 CACATG
13614393 TGCGGTATGG
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
18 4 0.17
19 20 0.83
ACGTcount: A:0.35, C:0.14, G:0.21, T:0.30
Consensus pattern (19 bp):
CACATGATGATGATATATG
Found at i:13614412 original size:58 final size:58
Alignment explanation
Indices: 13614310--13614431 Score: 201
Period size: 58 Copynumber: 2.1 Consensus size: 58
13614300 ATGTGGGAGA
*
13614310 GCACATGATGATGATATATGCCATGTGCGGTGTGAGACAACACATGATGATGATATAT
1 GCACATGATGATGATATATGCCATGTGCGGTATGAGACAACACATGATGATGATATAT
* * *
13614368 GCACATGATGATGATATATGCCATGTGCGGTATGGGAGAGCACATGATGATGATATAT
1 GCACATGATGATGATATATGCCATGTGCGGTATGAGACAACACATGATGATGATATAT
13614426 GC-CATG
1 GCACATG
13614432 TGTGGTGTGG
Statistics
Matches: 60, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
57 4 0.07
58 56 0.93
ACGTcount: A:0.31, C:0.14, G:0.28, T:0.27
Consensus pattern (58 bp):
GCACATGATGATGATATATGCCATGTGCGGTATGAGACAACACATGATGATGATATAT
Found at i:13614422 original size:39 final size:39
Alignment explanation
Indices: 13614367--13614489 Score: 180
Period size: 39 Copynumber: 3.2 Consensus size: 39
13614357 TGATGATATA
*
13614367 TGCACATGATGATGATATATGCCATGTGCGGTATGGGAG
1 TGCACATGATGATGATATATGCCATGTGCGGTGTGGGAG
* *
13614406 AGCACATGATGATGATATATGCCATGTGTGGTGTGGGAG
1 TGCACATGATGATGATATATGCCATGTGCGGTGTGGGAG
* *
13614445 TGCACATGAGGAT-AT-TA-GCTATGTGCGGTGTGGGAG
1 TGCACATGATGATGATATATGCCATGTGCGGTGTGGGAG
13614481 TGCACATGA
1 TGCACATGA
13614490 GCTGAGCTGA
Statistics
Matches: 77, Mismatches: 7, Indels: 3
0.89 0.08 0.03
Matches are distributed among these distances:
36 26 0.34
37 2 0.03
38 2 0.03
39 47 0.61
ACGTcount: A:0.25, C:0.12, G:0.35, T:0.28
Consensus pattern (39 bp):
TGCACATGATGATGATATATGCCATGTGCGGTGTGGGAG
Found at i:13617869 original size:12 final size:12
Alignment explanation
Indices: 13617851--13617883 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
13617841 AATTTTTGGA
13617851 AATATATATA-G
1 AATATATATATG
13617862 ATATATATATATG
1 A-ATATATATATG
13617875 AATATATAT
1 AATATATAT
13617884 GTTACAAATT
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
11 1 0.05
12 17 0.85
13 2 0.10
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (12 bp):
AATATATATATG
Found at i:13620993 original size:39 final size:39
Alignment explanation
Indices: 13620945--13621081 Score: 165
Period size: 39 Copynumber: 3.6 Consensus size: 39
13620935 GTGCCAATAG
* *
13620945 TGTGCGGTGTGGGAGAGGACATGCCGATGATATATGCCA
1 TGTGCGGTGTGGGAGAGCACATGACGATGATATATGCCA
* *
13620984 TGTGCGGTGTGGGAGAGCACATGATGATGATATTTGCCA
1 TGTGCGGTGTGGGAGAGCACATGACGATGATATATGCCA
* * *
13621023 TGTGCGGTGT-GGAGTGCACATGAGGAT-AT-TA-GCTA
1 TGTGCGGTGTGGGAGAGCACATGACGATGATATATGCCA
* *
13621058 TGTGCGGTGTGGGAGTGCGCATGA
1 TGTGCGGTGTGGGAGAGCACATGA
13621082 GTTGAGTTGA
Statistics
Matches: 88, Mismatches: 9, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
35 13 0.15
36 13 0.15
37 2 0.02
38 15 0.17
39 45 0.51
ACGTcount: A:0.21, C:0.13, G:0.39, T:0.26
Consensus pattern (39 bp):
TGTGCGGTGTGGGAGAGCACATGACGATGATATATGCCA
Found at i:13628252 original size:28 final size:29
Alignment explanation
Indices: 13628211--13628270 Score: 68
Period size: 30 Copynumber: 2.1 Consensus size: 29
13628201 GTCTATGGGC
*
13628211 AATTTTTCAATTTT-TGGGGCAAAAATGT
1 AATTTTTCAATTTTAGGGGGCAAAAATGT
* * *
13628239 AATTTTTGACTTTTACGGGGGCAAAAGTGT
1 AATTTTTCAATTTTA-GGGGGCAAAAATGT
13628269 AA
1 AA
13628271 ATTTCAAAAA
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
28 12 0.46
30 14 0.54
ACGTcount: A:0.32, C:0.08, G:0.22, T:0.38
Consensus pattern (29 bp):
AATTTTTCAATTTTAGGGGGCAAAAATGT
Found at i:13636270 original size:22 final size:22
Alignment explanation
Indices: 13636242--13636285 Score: 63
Period size: 22 Copynumber: 2.0 Consensus size: 22
13636232 CTTGGTGGCA
13636242 ACATGTAAA-TGAGAATAGTGTT
1 ACATGTAAACTGAGAA-AGTGTT
*
13636264 ACATGTAAACTTAGAAAGTGTT
1 ACATGTAAACTGAGAAAGTGTT
13636286 TGATGGAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.41, C:0.07, G:0.20, T:0.32
Consensus pattern (22 bp):
ACATGTAAACTGAGAAAGTGTT
Found at i:13636872 original size:2 final size:2
Alignment explanation
Indices: 13636865--13636891 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
13636855 TATAATATTG
13636865 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 A
13636892 NNNNNNNNNN
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:13637152 original size:41 final size:40
Alignment explanation
Indices: 13637060--13637244 Score: 150
Period size: 41 Copynumber: 4.6 Consensus size: 40
13637050 ATATTGCCCG
* * *
13637060 TGTGCAAGATGTGGGGGAATGCACACAATG--GCATTAGC-
1 TGTGCACGATGTGGGGGGATGCACACAATGATG-ATTCGCT
*
13637098 TGTGCACGATGTGGGGGGATGCACACGATGATGATATCGCT
1 TGTGCACGATGTGGGGGGATGCACACAATGATGAT-TCGCT
* * *
13637139 TGTGCACGATGTGGGGGGATGCATA-AAGCGATGATATTGCT
1 TGTGCACGATGTGGGGGGATGCACACAA-TGATGAT-TCGCT
* * * *
13637180 TATGCACAATGTGGAGGGAT--ACAC-ACGATGATTCCGACT
1 TGTGCACGATGTGGGGGGATGCACACAATGATGATT-CG-CT
*
13637219 ATGAGCACGATGTGGGGGGATGCACA
1 -TGTGCACGATGTGGGGGGATGCACA
13637245 TTAGCTGGGT
Statistics
Matches: 119, Mismatches: 17, Indels: 18
0.77 0.11 0.12
Matches are distributed among these distances:
37 1 0.01
38 35 0.29
39 7 0.06
40 21 0.18
41 52 0.44
42 3 0.03
ACGTcount: A:0.26, C:0.16, G:0.35, T:0.23
Consensus pattern (40 bp):
TGTGCACGATGTGGGGGGATGCACACAATGATGATTCGCT
Found at i:13638612 original size:8 final size:8
Alignment explanation
Indices: 13638599--13638655 Score: 50
Period size: 8 Copynumber: 7.6 Consensus size: 8
13638589 TGTCGGGAAT
13638599 GAAAGAGA
1 GAAAGAGA
13638607 GAAAGAGA
1 GAAAGAGA
13638615 GAAA-AGA
1 GAAAGAGA
**
13638622 GAAAG-TT
1 GAAAGAGA
13638629 GAAA-A-A
1 GAAAGAGA
*
13638635 GAAAGAAA
1 GAAAGAGA
13638643 GAAAGAGA
1 GAAAGAGA
*
13638651 AAAAG
1 GAAAG
13638656 GGGAAAGCTG
Statistics
Matches: 40, Mismatches: 5, Indels: 8
0.75 0.09 0.15
Matches are distributed among these distances:
6 4 0.10
7 12 0.30
8 24 0.60
ACGTcount: A:0.67, C:0.00, G:0.30, T:0.04
Consensus pattern (8 bp):
GAAAGAGA
Found at i:13642750 original size:17 final size:18
Alignment explanation
Indices: 13642715--13642753 Score: 55
Period size: 17 Copynumber: 2.2 Consensus size: 18
13642705 AAAGAGTTTA
13642715 ATTATGAATTGGTTAAAT
1 ATTATGAATTGGTTAAAT
13642733 ATTAT-AATT-GTTATAAT
1 ATTATGAATTGGTTA-AAT
13642750 ATTA
1 ATTA
13642754 AGGACTTATC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
16 4 0.20
17 11 0.55
18 5 0.25
ACGTcount: A:0.41, C:0.00, G:0.10, T:0.49
Consensus pattern (18 bp):
ATTATGAATTGGTTAAAT
Found at i:13644086 original size:18 final size:19
Alignment explanation
Indices: 13644061--13644103 Score: 70
Period size: 19 Copynumber: 2.3 Consensus size: 19
13644051 AAGTGAGAAG
13644061 AATATTTTA-GAATAAAAT
1 AATATTTTATGAATAAAAT
*
13644079 ATTATTTTATGAATAAAAT
1 AATATTTTATGAATAAAAT
13644098 AATATT
1 AATATT
13644104 AAAATATTAA
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
18 8 0.36
19 14 0.64
ACGTcount: A:0.51, C:0.00, G:0.05, T:0.44
Consensus pattern (19 bp):
AATATTTTATGAATAAAAT
Found at i:13644483 original size:16 final size:15
Alignment explanation
Indices: 13644462--13644500 Score: 60
Period size: 16 Copynumber: 2.5 Consensus size: 15
13644452 TTTGAGGAAG
13644462 TAAAATAAATAATTAA
1 TAAAATAAATAA-TAA
13644478 TAAAATAAATAATAA
1 TAAAATAAATAATAA
13644493 TAATAATA
1 TAA-AATA
13644501 GTAAATGAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
15 6 0.27
16 16 0.73
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (15 bp):
TAAAATAAATAATAA
Found at i:13644675 original size:3 final size:3
Alignment explanation
Indices: 13644667--13644718 Score: 65
Period size: 3 Copynumber: 17.7 Consensus size: 3
13644657 CGGCCAAAGA
13644667 AAG AAG AAG AA- AAG AAAG AAG AAG AAG AGAG AAG AAG AA- AA- AAG
1 AAG AAG AAG AAG AAG -AAG AAG AAG AAG A-AG AAG AAG AAG AAG AAG
13644711 AAG AAG AA
1 AAG AAG AA
13644719 AGAAAGAAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 8
0.85 0.00 0.15
Matches are distributed among these distances:
2 6 0.13
3 33 0.73
4 6 0.13
ACGTcount: A:0.71, C:0.00, G:0.29, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:13644678 original size:10 final size:10
Alignment explanation
Indices: 13644663--13644722 Score: 70
Period size: 10 Copynumber: 5.9 Consensus size: 10
13644653 GTGTCGGCCA
13644663 AAGAAAGAAG
1 AAGAAAGAAG
13644673 AAGAAAAGAAAG
1 AAG-AAAG-AAG
13644685 AAG-AAGAAG
1 AAGAAAGAAG
13644694 -AGAGAAGAAG
1 AAGA-AAGAAG
*
13644704 AAAAAAGAAG
1 AAGAAAGAAG
13644714 AAGAAAGAA
1 AAGAAAGAA
13644723 AGAAAAAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 10
0.78 0.04 0.18
Matches are distributed among these distances:
8 2 0.05
9 3 0.07
10 26 0.60
11 6 0.14
12 6 0.14
ACGTcount: A:0.72, C:0.00, G:0.28, T:0.00
Consensus pattern (10 bp):
AAGAAAGAAG
Found at i:13644744 original size:15 final size:15
Alignment explanation
Indices: 13644662--13644747 Score: 59
Period size: 15 Copynumber: 5.7 Consensus size: 15
13644652 AGTGTCGGCC
* *
13644662 AAAGAAAGAAGAAGA
1 AAAGAAAAAAAAAGA
* *
13644677 AAAGAAAGAAGAAGA
1 AAAGAAAAAAAAAGA
* * *
13644692 AGAGAGAAGAAGAA-A
1 AAAGA-AAAAAAAAGA
* *
13644707 AAAGAAGAAGAAAG-
1 AAAGAAAAAAAAAGA
13644721 AAAGAAAAAAAAAAGA
1 AAAG-AAAAAAAAAGA
13644737 AAAGAAAAAAA
1 AAAGAAAAAAA
13644748 TGAGGGTGAC
Statistics
Matches: 59, Mismatches: 8, Indels: 8
0.79 0.11 0.11
Matches are distributed among these distances:
14 8 0.14
15 39 0.66
16 12 0.20
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (15 bp):
AAAGAAAAAAAAAGA
Found at i:13644746 original size:13 final size:14
Alignment explanation
Indices: 13644666--13644747 Score: 86
Period size: 13 Copynumber: 6.2 Consensus size: 14
13644656 TCGGCCAAAG
13644666 AAAGAAGAAGAAAA
1 AAAGAAGAAGAAAA
*
13644680 GAAAGAAGAAG-AAG
1 -AAAGAAGAAGAAAA
*
13644694 AGAGAAGAAG-AAA
1 AAAGAAGAAGAAAA
*
13644707 AAAGAAGAAGAAAG
1 AAAGAAGAAGAAAA
13644721 AAAG-A-AA-AAAA
1 AAAGAAGAAGAAAA
13644732 AAAGAA-AAGAAAA
1 AAAGAAGAAGAAAA
13644745 AAA
1 AAA
13644748 TGAGGGTGAC
Statistics
Matches: 58, Mismatches: 6, Indels: 8
0.81 0.08 0.11
Matches are distributed among these distances:
11 7 0.12
12 5 0.09
13 28 0.48
14 8 0.14
15 10 0.17
ACGTcount: A:0.77, C:0.00, G:0.23, T:0.00
Consensus pattern (14 bp):
AAAGAAGAAGAAAA
Found at i:13644931 original size:59 final size:56
Alignment explanation
Indices: 13644848--13644971 Score: 178
Period size: 56 Copynumber: 2.2 Consensus size: 56
13644838 AGAGAAAGAA
*
13644848 GAAAGGAAAGGAAAGGAGAGAGAAGGAAAGTCGACGG-GAGGAGAAGGGAAAGAAGAAAG
1 GAAAGGAAAGGAAAGGAGAGAGAAGG-AAG--GACGGCG-GGAGAAGAGAAAGAAGAAAG
* *
13644907 GAAAGGAAAGGAAAGGAGTGAGAAGGAAGGCCGGCGGGAGAAGAGAAAGAAGAAAG
1 GAAAGGAAAGGAAAGGAGAGAGAAGGAAGGACGGCGGGAGAAGAGAAAGAAGAAAG
13644963 GAAAGGAAA
1 GAAAGGAAA
13644972 TGAGAGAAAG
Statistics
Matches: 61, Mismatches: 3, Indels: 5
0.88 0.04 0.07
Matches are distributed among these distances:
56 32 0.52
57 1 0.02
58 3 0.05
59 25 0.41
ACGTcount: A:0.51, C:0.04, G:0.44, T:0.02
Consensus pattern (56 bp):
GAAAGGAAAGGAAAGGAGAGAGAAGGAAGGACGGCGGGAGAAGAGAAAGAAGAAAG
Found at i:13644954 original size:49 final size:48
Alignment explanation
Indices: 13644893--13645001 Score: 132
Period size: 49 Copynumber: 2.2 Consensus size: 48
13644883 GGGAGGAGAA
*
13644893 GGGAAAGAAGAAAG-GAAAGGAAAGGAAAGGAGTGAGAAGGAAGGCCGGC
1 GGGAAAGAAGAAAGAGAAAGGAAAGGAAAGGA--GAGAAAGAAGGCCGGC
* *
13644942 GGGAGAAG-AGAAAGAAGAAAGGAAAGGAAATGAGAGAAAGAAGGCTGGC
1 GGGA-AAGAAGAAAG-AGAAAGGAAAGGAAAGGAGAGAAAGAAGGCCGGC
13644991 GGGAAGAGAAG
1 GGGAA-AGAAG
13645002 GGAGAGAAGG
Statistics
Matches: 52, Mismatches: 3, Indels: 9
0.81 0.05 0.14
Matches are distributed among these distances:
48 1 0.02
49 30 0.58
50 5 0.10
51 16 0.31
ACGTcount: A:0.49, C:0.05, G:0.44, T:0.03
Consensus pattern (48 bp):
GGGAAAGAAGAAAGAGAAAGGAAAGGAAAGGAGAGAAAGAAGGCCGGC
Found at i:13645090 original size:25 final size:25
Alignment explanation
Indices: 13645062--13645109 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
13645052 AAAGAAAAAA
* *
13645062 AAAAGAGTGGACATGGCCTAATAAG
1 AAAAGAATGGACATGGCCCAATAAG
*
13645087 AAAAGAATGGGCATGGCCCAATA
1 AAAAGAATGGACATGGCCCAATA
13645110 GGAAGAAATT
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:0.44, C:0.15, G:0.27, T:0.15
Consensus pattern (25 bp):
AAAAGAATGGACATGGCCCAATAAG
Found at i:13648673 original size:19 final size:20
Alignment explanation
Indices: 13648646--13648691 Score: 60
Period size: 19 Copynumber: 2.4 Consensus size: 20
13648636 AAGAGACAAG
*
13648646 ATAAAATTTTTA-GAATAAA
1 ATAATATTTTTATGAATAAA
*
13648665 ATAATA-TTTTATTAATAAA
1 ATAATATTTTTATGAATAAA
13648684 ATAATATT
1 ATAATATT
13648692 AAAATATTAA
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
18 5 0.22
19 17 0.74
20 1 0.04
ACGTcount: A:0.54, C:0.00, G:0.02, T:0.43
Consensus pattern (20 bp):
ATAATATTTTTATGAATAAA
Found at i:13649218 original size:28 final size:28
Alignment explanation
Indices: 13649161--13649219 Score: 75
Period size: 28 Copynumber: 2.1 Consensus size: 28
13649151 TTTGGAGTAT
* * *
13649161 AGGGGTAAAATGGTAATTTTGCCACTCC
1 AGGGGCAAAATAGTAATTTTGCCACACC
13649189 AGGGGCAAAATAGTAATTTT-CCACCACC
1 AGGGGCAAAATAGTAATTTTGCCA-CACC
13649217 AGG
1 AGG
13649220 ACATTTGTCC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 3 0.11
28 24 0.89
ACGTcount: A:0.32, C:0.20, G:0.24, T:0.24
Consensus pattern (28 bp):
AGGGGCAAAATAGTAATTTTGCCACACC
Found at i:13657754 original size:13 final size:13
Alignment explanation
Indices: 13657736--13657760 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
13657726 TTTTAGAAAA
13657736 TTTATAAAATCAT
1 TTTATAAAATCAT
13657749 TTTATAAAATCA
1 TTTATAAAATCA
13657761 CAATTTCTCC
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):
TTTATAAAATCAT
Found at i:13659181 original size:19 final size:19
Alignment explanation
Indices: 13659157--13659194 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
13659147 CTGCCAAACC
*
13659157 CTCAAATTATACTCCAATA
1 CTCAAATCATACTCCAATA
13659176 CTCAAATCATACTCCAATA
1 CTCAAATCATACTCCAATA
13659195 AGTTAAATGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.42, C:0.29, G:0.00, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:13663482 original size:8 final size:8
Alignment explanation
Indices: 13663471--13663504 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
13663461 AGAAAGAAAA
*
13663471 ATATATAT
1 ATATAAAT
13663479 ATATAAAT
1 ATATAAAT
*
13663487 AAATAAAT
1 ATATAAAT
13663495 ATATAAAT
1 ATATAAAT
13663503 AT
1 AT
13663505 GAAAAAGAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
8 23 1.00
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (8 bp):
ATATAAAT
Found at i:13663515 original size:24 final size:23
Alignment explanation
Indices: 13663463--13663522 Score: 70
Period size: 22 Copynumber: 2.7 Consensus size: 23
13663453 AAGAAGAAAG
*
13663463 AAAGAA-AAATATATATATATAA
1 AAAGAATAAATATATAAATATAA
*
13663485 ATA-AATAAATATATAAATATGAA
1 AAAGAATAAATATATAAATAT-AA
*
13663508 AAAGAATAAAAATAT
1 AAAGAATAAATATAT
13663523 TGAAACTTAC
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
21 2 0.06
22 15 0.48
23 4 0.13
24 10 0.32
ACGTcount: A:0.68, C:0.00, G:0.05, T:0.27
Consensus pattern (23 bp):
AAAGAATAAATATATAAATATAA
Found at i:13680687 original size:17 final size:17
Alignment explanation
Indices: 13680657--13680689 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
13680647 TTCTTGATAA
13680657 AATAAAACTCCTTATTG
1 AATAAAACTCCTTATTG
13680674 AATAATAACT-CTTATT
1 AATAA-AACTCCTTATT
13680690 TTATTATTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.42, C:0.15, G:0.03, T:0.39
Consensus pattern (17 bp):
AATAAAACTCCTTATTG
Found at i:13680893 original size:28 final size:27
Alignment explanation
Indices: 13680831--13680998 Score: 149
Period size: 28 Copynumber: 5.8 Consensus size: 27
13680821 TTAAGACAAC
*
13680831 TCTTGTCTTTAATTAAGACAAAAATATTTT
1 TCTTGTC-TAAATTAAGAC--AAATATTTT
* *
13680861 ATCTTGTCTAAATTGAGATAAATATGTTT
1 -TCTTGTCTAAATTAAGACAAATAT-TTT
13680890 TCTTGTC-AAGATTAAGACAAAAAATATTTT
1 TCTTGTCTAA-ATTAAGAC---AAATATTTT
*
13680920 TTTTGTCTTAAATTAAGACAAATATATTT
1 TCTTGTC-TAAATTAAGACAAATAT-TTT
* *
13680949 TCTTGTTTAAATTAAGACCAAACATGTTT
1 TCTTGTCTAAATTAAGA-CAAATAT-TTT
*
13680978 TTTTGTCTAAATTAAGACAAA
1 TCTTGTCTAAATTAAGACAAA
13680999 CATATTAAAG
Statistics
Matches: 116, Mismatches: 12, Indels: 21
0.78 0.08 0.14
Matches are distributed among these distances:
27 2 0.02
28 39 0.34
29 35 0.30
30 17 0.15
31 21 0.18
32 2 0.02
ACGTcount: A:0.38, C:0.10, G:0.10, T:0.43
Consensus pattern (27 bp):
TCTTGTCTAAATTAAGACAAATATTTT
Found at i:13680914 original size:59 final size:56
Alignment explanation
Indices: 13680841--13681004 Score: 195
Period size: 59 Copynumber: 2.8 Consensus size: 56
13680831 TCTTGTCTTT
* * *
13680841 AATTAAGACAAAAATATTTTATCTTGTCTAAATTGAGATAAATATGTTTTCTTG-TCA
1 AATTAAGACAAAAATATTTT-T-TTGTCTAAATTAAGACAAATATATTTTCTTGTTCA
*
13680898 AGATTAAGACAAAAAATATTTTTTTTGTCTTAAATTAAGACAAATATATTTTCTTGTTTA
1 A-ATTAAGAC-AAAAATA-TTTTTTTGTC-TAAATTAAGACAAATATATTTTCTTGTTCA
* * *
13680958 AATTAAGACCAAACATGTTTTTTTGTCTAAATTAAGACAAACATATT
1 AATTAAGA-CAAAAATATTTTTTTGTCTAAATTAAGACAAATATATT
13681005 AAAGTTGTCA
Statistics
Matches: 94, Mismatches: 7, Indels: 12
0.83 0.06 0.11
Matches are distributed among these distances:
57 20 0.21
58 23 0.24
59 43 0.46
60 8 0.09
ACGTcount: A:0.40, C:0.09, G:0.09, T:0.41
Consensus pattern (56 bp):
AATTAAGACAAAAATATTTTTTTGTCTAAATTAAGACAAATATATTTTCTTGTTCA
Found at i:13681013 original size:29 final size:28
Alignment explanation
Indices: 13680831--13681004 Score: 161
Period size: 29 Copynumber: 6.0 Consensus size: 28
13680821 TTAAGACAAC
* *
13680831 TCTTGTCTTTAATTAAGACAAAAATATTTT
1 TCTTGTC-TAAATTAAGACAAACATA-TTT
* * * *
13680861 ATCTTGTCTAAATTGAGATAAATATGTTT
1 -TCTTGTCTAAATTAAGACAAACATATTT
*
13680890 TCTTGTC-AAGATTAAGACAAAAAATATTTT
1 TCTTGTCTAA-ATTAAGAC-AAACATA-TTT
* *
13680920 TTTTGTCTTAAATTAAGACAAATATATTT
1 TCTTGTC-TAAATTAAGACAAACATATTT
* *
13680949 TCTTGTTTAAATTAAGACCAAACATGTTT
1 TCTTGTCTAAATTAAGA-CAAACATATTT
*
13680978 TTTTGTCTAAATTAAGACAAACATATT
1 TCTTGTCTAAATTAAGACAAACATATT
13681005 AAAGTTGTCA
Statistics
Matches: 119, Mismatches: 18, Indels: 15
0.78 0.12 0.10
Matches are distributed among these distances:
27 2 0.02
28 32 0.27
29 40 0.34
30 28 0.24
31 15 0.13
32 2 0.02
ACGTcount: A:0.38, C:0.10, G:0.09, T:0.43
Consensus pattern (28 bp):
TCTTGTCTAAATTAAGACAAACATATTT
Found at i:13695764 original size:34 final size:34
Alignment explanation
Indices: 13695717--13695925 Score: 258
Period size: 34 Copynumber: 6.1 Consensus size: 34
13695707 TAAGCAACAC
* * * * **
13695717 CAAAACTTTAGCACCAAATGTTACATGCTAAGAC
1 CAAAGCTTCAGCACCAGATGTTACATGCCAAGGT
*
13695751 CAAAGCTTCAGCACCAGATGTTACATGACAAGGT
1 CAAAGCTTCAGCACCAGATGTTACATGCCAAGGT
* *
13695785 CAAAGCTTCACCACTAGATGTTACACT-CCAAGGT
1 CAAAGCTTCAGCACCAGATGTTACA-TGCCAAGGT
*
13695819 CAAAGCTTCAGCACCAGATGTAACATGCCAAGGT
1 CAAAGCTTCAGCACCAGATGTTACATGCCAAGGT
* * * *
13695853 TAAAGCTTCACCATCAGAGGTTACATGCCAAGGT
1 CAAAGCTTCAGCACCAGATGTTACATGCCAAGGT
* *
13695887 TAAAGCTTCAGCACCAGATGTTACATGCTAAGGT
1 CAAAGCTTCAGCACCAGATGTTACATGCCAAGGT
13695921 CAAAG
1 CAAAG
13695926 TGTCACGACC
Statistics
Matches: 150, Mismatches: 23, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
33 1 0.01
34 148 0.99
35 1 0.01
ACGTcount: A:0.35, C:0.24, G:0.18, T:0.22
Consensus pattern (34 bp):
CAAAGCTTCAGCACCAGATGTTACATGCCAAGGT
Found at i:13698414 original size:19 final size:19
Alignment explanation
Indices: 13698390--13698427 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
13698380 CTGCCAAACC
*
13698390 CTCAAATTATACTCCAATA
1 CTCAAATCATACTCCAATA
*
13698409 CTCAAATCATACTCGAATA
1 CTCAAATCATACTCCAATA
13698428 AGTTAAATGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.42, C:0.26, G:0.03, T:0.29
Consensus pattern (19 bp):
CTCAAATCATACTCCAATA
Found at i:13698873 original size:67 final size:67
Alignment explanation
Indices: 13698757--13698889 Score: 248
Period size: 67 Copynumber: 2.0 Consensus size: 67
13698747 GGGCTTGACA
* *
13698757 CAAAGCTTCAACACCATATATTACACGCCAAAGCTTCCTTTTTCCTACTGATGTTACATGCCAAG
1 CAAAGCTTCAACACCATATATTACACGCCAAAGCTTCCTTCTTCATACTGATGTTACATGCCAAG
13698822 GT
66 GT
13698824 CAAAGCTTCAACACCATATATTACACGCCAAAGCTTCCTTCTTCATACTGATGTTACATGCCAAG
1 CAAAGCTTCAACACCATATATTACACGCCAAAGCTTCCTTCTTCATACTGATGTTACATGCCAAG
13698889 G
66 G
13698890 CATGAATCAC
Statistics
Matches: 64, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
67 64 1.00
ACGTcount: A:0.31, C:0.29, G:0.12, T:0.29
Consensus pattern (67 bp):
CAAAGCTTCAACACCATATATTACACGCCAAAGCTTCCTTCTTCATACTGATGTTACATGCCAAG
GT
Found at i:13704814 original size:68 final size:68
Alignment explanation
Indices: 13704555--13704815 Score: 242
Period size: 68 Copynumber: 3.9 Consensus size: 68
13704545 ACAAGTTTAC
* * * ** * *
13704555 TCATCTCATAAGGTATAT-GAAAATATATCATATACATAATCCCATGGCATTCATCATGCTTTCT
1 TCATCTCATATGGTATATGGAATATACATCATATACATAATCTTATGGCATTCATCATGCATACT
**
13704619 CGA
66 TAA
*** * * * *
13704622 TCATCTCATGCAGTATATGGACA-ATACATTATATACATAATCTCT-CGACATTTATCATGCATA
1 TCATCTCATATGGTATATGGA-ATATACATCATATACATAATCT-TATGGCATTCATCATGCATA
13704685 CTTAA
64 CTTAA
* * * * * * *
13704690 TTACCTCATATGGTGA-ATGGAATTTACATCATATACACAATCTTATAGTATACATCATGCATAC
1 TCATCTCATATGGT-ATATGGAATATACATCATATACATAATCTTATGGCATTCATCATGCATAC
13704754 TTAA
65 TTAA
* *
13704758 TCATTTCATATGGTATATGGAATTTACATCATATACATAATCTTATGGCATTCATCAT
1 TCATCTCATATGGTATATGGAATATACATCATATACATAATCTTATGGCATTCATCAT
13704816 ATCAAACATG
Statistics
Matches: 152, Mismatches: 35, Indels: 13
0.76 0.17 0.06
Matches are distributed among these distances:
67 18 0.12
68 132 0.87
69 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.36
Consensus pattern (68 bp):
TCATCTCATATGGTATATGGAATATACATCATATACATAATCTTATGGCATTCATCATGCATACT
TAA
Found at i:13706009 original size:15 final size:15
Alignment explanation
Indices: 13705968--13706014 Score: 51
Period size: 15 Copynumber: 3.0 Consensus size: 15
13705958 ATTTAAGTAA
*
13705968 ATGTCGTATTTACTTTT
1 ATGTCTTATTTAC--TT
13705985 AT-TCTCTATTTACTT
1 ATGTCT-TATTTACTT
13706000 ATGTCTTATTTACTT
1 ATGTCTTATTTACTT
13706015 TTTATTCTCT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
15 13 0.48
16 5 0.19
17 9 0.33
ACGTcount: A:0.19, C:0.15, G:0.06, T:0.60
Consensus pattern (15 bp):
ATGTCTTATTTACTT
Found at i:13706010 original size:32 final size:33
Alignment explanation
Indices: 13705968--13706033 Score: 116
Period size: 33 Copynumber: 2.0 Consensus size: 33
13705958 ATTTAAGTAA
13705968 ATGTCGTATTTAC-TTTTATTCTCTATTTACTT
1 ATGTCGTATTTACTTTTTATTCTCTATTTACTT
*
13706000 ATGTCTTATTTACTTTTTATTCTCTATTTACTT
1 ATGTCGTATTTACTTTTTATTCTCTATTTACTT
13706033 A
1 A
13706034 AGATATTTAA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 12 0.38
33 20 0.62
ACGTcount: A:0.20, C:0.15, G:0.05, T:0.61
Consensus pattern (33 bp):
ATGTCGTATTTACTTTTTATTCTCTATTTACTT
Found at i:13706107 original size:16 final size:16
Alignment explanation
Indices: 13706077--13706119 Score: 50
Period size: 16 Copynumber: 2.6 Consensus size: 16
13706067 ATTTGGATTC
*
13706077 AATAAAAATATCAAAAA
1 AATAAAAAT-CCAAAAA
*
13706094 AATAAAAATCCAAAAC
1 AATAAAAATCCAAAAA
*
13706110 AATCAAAATC
1 AATAAAAATC
13706120 TAAATTTTAG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
16 14 0.61
17 9 0.39
ACGTcount: A:0.70, C:0.14, G:0.00, T:0.16
Consensus pattern (16 bp):
AATAAAAATCCAAAAA
Found at i:13711343 original size:23 final size:23
Alignment explanation
Indices: 13711303--13711365 Score: 58
Period size: 23 Copynumber: 2.7 Consensus size: 23
13711293 TAAGTAGGCC
*
13711303 TAAGGCAT-AAATGAATGATGAAAA
1 TAAGG-ATAAAATG-ATGAAGAAAA
*
13711327 TAAGGATAAAATGATGAAGGAAA
1 TAAGGATAAAATGATGAAGAAAA
13711350 T-AGAGATAATAATGAT
1 TAAG-GATAA-AATGAT
13711366 TTCCTAGGTA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
22 2 0.06
23 16 0.47
24 16 0.47
ACGTcount: A:0.54, C:0.02, G:0.22, T:0.22
Consensus pattern (23 bp):
TAAGGATAAAATGATGAAGAAAA
Found at i:13717918 original size:68 final size:68
Alignment explanation
Indices: 13717814--13718056 Score: 278
Period size: 68 Copynumber: 3.6 Consensus size: 68
13717804 TCTCATAAGT
** * *
13717814 TATATGGAA-AGTACATC-TATACATAATCTCATGGCATTCATCATGTTTTCTCAATCATCCCAT
1 TATATGGAATA-TACATCATATACATAATCTCATGGCATTCATCATGCATACTTAATCATCCCAT
* *
13717877 GTAG
65 ATGG
*
13717881 TATATGGAATATACATCATATACATAATCTCATGGCATTTATCATGCATACTTAATCA-CCTCAT
1 TATATGGAATATACATCATATACATAATCTCATGGCATTCATCATGCATACTTAATCATCC-CAT
13717945 ATGG
65 ATGG
* * * * * *
13717949 TATATGGAACT-TACATCATATACACAATCTTATAGTATACATCATGCATACTTAATCATCTCAT
1 TATATGGAA-TATACATCATATACATAATCTCATGGCATTCATCATGCATACTTAATCATCCCAT
13718013 ATGG
65 ATGG
* * * *
13718017 TATATAGAATTTACATCATATACGTAATCTTATGGCATTC
1 TATATGGAATATACATCATATACATAATCTCATGGCATTC
13718057 GTCGTACAGA
Statistics
Matches: 150, Mismatches: 20, Indels: 11
0.83 0.11 0.06
Matches are distributed among these distances:
67 18 0.12
68 130 0.87
69 2 0.01
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.36
Consensus pattern (68 bp):
TATATGGAATATACATCATATACATAATCTCATGGCATTCATCATGCATACTTAATCATCCCATA
TGG
Found at i:13732378 original size:12 final size:12
Alignment explanation
Indices: 13732361--13732394 Score: 61
Period size: 12 Copynumber: 2.9 Consensus size: 12
13732351 AAAGAAATAA
13732361 AGAAATAATTAC
1 AGAAATAATTAC
13732373 AGAAATAATTAC
1 AGAAATAATTAC
13732385 AGAAA-AATTA
1 AGAAATAATTA
13732395 ATGTATTGGT
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
11 5 0.23
12 17 0.77
ACGTcount: A:0.62, C:0.06, G:0.09, T:0.24
Consensus pattern (12 bp):
AGAAATAATTAC
Found at i:13732763 original size:31 final size:31
Alignment explanation
Indices: 13732721--13732781 Score: 95
Period size: 31 Copynumber: 2.0 Consensus size: 31
13732711 ACATCAATTT
*
13732721 ATTTGGCCAATGATAGGATGTTATGAATTAA
1 ATTTGGCCAATGATAAGATGTTATGAATTAA
* *
13732752 ATTTGGTCAATGATAATATGTTATGAATTA
1 ATTTGGCCAATGATAAGATGTTATGAATTA
13732782 TATAGAGACT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 27 1.00
ACGTcount: A:0.36, C:0.05, G:0.20, T:0.39
Consensus pattern (31 bp):
ATTTGGCCAATGATAAGATGTTATGAATTAA
Found at i:13734417 original size:32 final size:33
Alignment explanation
Indices: 13734356--13734418 Score: 83
Period size: 32 Copynumber: 1.9 Consensus size: 33
13734346 TTTTTTGAGA
* * * *
13734356 GGATCATGCATAACTTGACACTGCTTTTTCATG
1 GGATCAAGCATAACTTCACACTACCTTTTCATG
13734389 GGATCAAGCATAAC-TCACACTACCTTTTCA
1 GGATCAAGCATAACTTCACACTACCTTTTCA
13734419 CAAGATCAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
32 13 0.50
33 13 0.50
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (33 bp):
GGATCAAGCATAACTTCACACTACCTTTTCATG
Found at i:13734776 original size:36 final size:36
Alignment explanation
Indices: 13734728--13734807 Score: 106
Period size: 36 Copynumber: 2.2 Consensus size: 36
13734718 ACTATCAGCT
* * *
13734728 TGCCTTTTCAACAGGATCAAGTATAACCTTTACAACA
1 TGCC-TTTCAACAAGATCAAGCATAACCTTCACAACA
* *
13734765 TGCCTTTCAACAAGATCAGGCGTAACCTTCACAACA
1 TGCCTTTCAACAAGATCAAGCATAACCTTCACAACA
13734801 TGCCTTT
1 TGCCTTT
13734808 TATAGGACCA
Statistics
Matches: 38, Mismatches: 5, Indels: 1
0.86 0.11 0.02
Matches are distributed among these distances:
36 34 0.89
37 4 0.11
ACGTcount: A:0.31, C:0.28, G:0.12, T:0.29
Consensus pattern (36 bp):
TGCCTTTCAACAAGATCAAGCATAACCTTCACAACA
Found at i:13736579 original size:20 final size:20
Alignment explanation
Indices: 13736537--13736580 Score: 70
Period size: 20 Copynumber: 2.2 Consensus size: 20
13736527 ACTTTTTATA
**
13736537 GTTAGAGAAGCTTTGTAGTC
1 GTTAGAGAAGCTTTGTAACC
13736557 GTTAGAGAAGCTTTGTAACC
1 GTTAGAGAAGCTTTGTAACC
13736577 GTTA
1 GTTA
13736581 AGGATGTTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 22 1.00
ACGTcount: A:0.27, C:0.11, G:0.27, T:0.34
Consensus pattern (20 bp):
GTTAGAGAAGCTTTGTAACC
Found at i:13736796 original size:21 final size:21
Alignment explanation
Indices: 13736772--13736838 Score: 98
Period size: 21 Copynumber: 3.2 Consensus size: 21
13736762 TATAAGTCAA
*
13736772 GTATCAAGACTTTGAAACTAG
1 GTATCAAGACTTTGAAACCAG
*
13736793 GTATCAAGATTTTGAAACCAG
1 GTATCAAGACTTTGAAACCAG
* *
13736814 GTATCAAGACTTTGAAGCCAT
1 GTATCAAGACTTTGAAACCAG
13736835 GTAT
1 GTAT
13736839 TAAAACTATG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 41 1.00
ACGTcount: A:0.36, C:0.15, G:0.19, T:0.30
Consensus pattern (21 bp):
GTATCAAGACTTTGAAACCAG
Found at i:13737952 original size:29 final size:29
Alignment explanation
Indices: 13737920--13737985 Score: 71
Period size: 28 Copynumber: 2.3 Consensus size: 29
13737910 TAATTTCGGT
* * *
13737920 ATTTTTCAGAGCATAGGGGTAAAATGGTA
1 ATTTTTCACACCATAGGGGCAAAATGGTA
* * *
13737949 ATTTTAC-CACCCTAGTGGCAAAATGGTA
1 ATTTTTCACACCATAGGGGCAAAATGGTA
13737977 ATTTTTCAC
1 ATTTTTCAC
13737986 CACCCATACA
Statistics
Matches: 29, Mismatches: 7, Indels: 2
0.76 0.18 0.05
Matches are distributed among these distances:
28 22 0.76
29 7 0.24
ACGTcount: A:0.32, C:0.15, G:0.20, T:0.33
Consensus pattern (29 bp):
ATTTTTCACACCATAGGGGCAAAATGGTA
Found at i:13740592 original size:5 final size:5
Alignment explanation
Indices: 13740582--13740613 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
13740572 AGTGTGGCCC
13740582 AAGTT AAGTT AAGTT AAGTT AAGTT AAGTT AA
1 AAGTT AAGTT AAGTT AAGTT AAGTT AAGTT AA
13740614 ATCAGGTTAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.44, C:0.00, G:0.19, T:0.38
Consensus pattern (5 bp):
AAGTT
Found at i:13740839 original size:9 final size:9
Alignment explanation
Indices: 13740825--13740850 Score: 52
Period size: 9 Copynumber: 2.9 Consensus size: 9
13740815 AGGCCGAGAC
13740825 TCCTCCACA
1 TCCTCCACA
13740834 TCCTCCACA
1 TCCTCCACA
13740843 TCCTCCAC
1 TCCTCCAC
13740851 TTTCTCCACT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 17 1.00
ACGTcount: A:0.19, C:0.58, G:0.00, T:0.23
Consensus pattern (9 bp):
TCCTCCACA
Found at i:13759332 original size:29 final size:30
Alignment explanation
Indices: 13759290--13759358 Score: 113
Period size: 29 Copynumber: 2.3 Consensus size: 30
13759280 ACTATTAGTA
13759290 ATAAGGATTTATTTGACTCAAAAT-AAAGT
1 ATAAGGATTTATTTGACTCAAAATAAAAGT
* *
13759319 ATAAAGATTTATTTGATTCAAAATAAAAGT
1 ATAAGGATTTATTTGACTCAAAATAAAAGT
13759349 ATAAGGATTT
1 ATAAGGATTT
13759359 GATTGAACAC
Statistics
Matches: 36, Mismatches: 3, Indels: 1
0.90 0.08 0.03
Matches are distributed among these distances:
29 22 0.61
30 14 0.39
ACGTcount: A:0.46, C:0.04, G:0.13, T:0.36
Consensus pattern (30 bp):
ATAAGGATTTATTTGACTCAAAATAAAAGT
Found at i:13759372 original size:29 final size:30
Alignment explanation
Indices: 13759290--13759375 Score: 90
Period size: 29 Copynumber: 2.9 Consensus size: 30
13759280 ACTATTAGTA
*
13759290 ATAAGGATTTATTTGACT-CAAAAT-AAAGT
1 ATAAAGATTTATTTGA-TACAAAATAAAAGT
*
13759319 ATAAAGATTTATTTGATTCAAAATAAAAGT
1 ATAAAGATTTATTTGATACAAAATAAAAGT
* *
13759349 ATAAGGATTTGA-TTGA-ACACAATAAAA
1 ATAAAGATTT-ATTTGATACAAAATAAAA
13759376 CTTGAAAGAA
Statistics
Matches: 50, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
28 1 0.02
29 30 0.60
30 18 0.36
31 1 0.02
ACGTcount: A:0.49, C:0.06, G:0.13, T:0.33
Consensus pattern (30 bp):
ATAAAGATTTATTTGATACAAAATAAAAGT
Found at i:13759587 original size:15 final size:15
Alignment explanation
Indices: 13759567--13759596 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13759557 TATTTATAAA
13759567 TAATTAATAAATATT
1 TAATTAATAAATATT
*
13759582 TAATTAATTAATATT
1 TAATTAATAAATATT
13759597 GGATATTTTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (15 bp):
TAATTAATAAATATT
Found at i:13759747 original size:21 final size:21
Alignment explanation
Indices: 13759695--13759756 Score: 63
Period size: 21 Copynumber: 3.0 Consensus size: 21
13759685 TAATCTATTA
*
13759695 TATTTAAATTTATATAAAAAT
1 TATTTAAATTTAAATAAAAAT
* * ** *
13759716 TAATTACATTTAAATTTAATT
1 TATTTAAATTTAAATAAAAAT
13759737 TATTTAAATTTAAA-AAAAAT
1 TATTTAAATTTAAATAAAAAT
13759757 ATCTTATCTC
Statistics
Matches: 30, Mismatches: 11, Indels: 1
0.71 0.26 0.02
Matches are distributed among these distances:
20 3 0.10
21 27 0.90
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.47
Consensus pattern (21 bp):
TATTTAAATTTAAATAAAAAT
Found at i:13767590 original size:141 final size:140
Alignment explanation
Indices: 13767331--13767595 Score: 325
Period size: 141 Copynumber: 1.9 Consensus size: 140
13767321 ACCCCGATAC
* * * *
13767331 AGCAAGACTCGCACAGTTACGGGGATTGGGTTATAGCCTTATTGCAGTGGTTGATCACCTCGGAG
1 AGCAAGACTCGCACAATTACGGGGATTAGGTTATAGCCTCATTGCAGTGGTTGATCACCTCAGAG
* * * * ** *
13767396 GATCAGACGCTGAAGGCAAACGCCATAAAGGGTATTCAAACAAAGTTTGCCCTTAANAATGTAAA
66 GATCAGACCCTAAAGGCAAACACCATAAACGACATTCAAACAAAGTTTACCCTTAA-AATGTAAA
13767461 AACCCTGAAAT
130 AACCCTGAAAT
* * * *** *
13767472 AGCAAGATTCGCACAATTATGGGGATTAGGTTATCGCCTCATTGCAGTGGTTGATCGGTTCAGAT
1 AGCAAGACTCGCACAATTACGGGGATTAGGTTATAGCCTCATTGCAGTGGTTGATCACCTCAGAG
* *
13767537 GATCAGACCCTAAAGGCAAACACCATAGACGACATTCAAA-AAAGTTTTACCCTTGAAAT
66 GATCAGACCCTAAAGGCAAACACCATAAACGACATTCAAACAAAG-TTTACCCTTAAAAT
13767596 TTTGCAAATA
Statistics
Matches: 103, Mismatches: 20, Indels: 3
0.82 0.16 0.02
Matches are distributed among these distances:
140 7 0.07
141 96 0.93
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (140 bp):
AGCAAGACTCGCACAATTACGGGGATTAGGTTATAGCCTCATTGCAGTGGTTGATCACCTCAGAG
GATCAGACCCTAAAGGCAAACACCATAAACGACATTCAAACAAAGTTTACCCTTAAAATGTAAAA
ACCCTGAAAT
Found at i:13769609 original size:16 final size:16
Alignment explanation
Indices: 13769588--13769619 Score: 64
Period size: 16 Copynumber: 2.0 Consensus size: 16
13769578 CTCTAGGATT
13769588 TTCAAATTCATTTTCA
1 TTCAAATTCATTTTCA
13769604 TTCAAATTCATTTTCA
1 TTCAAATTCATTTTCA
13769620 CTCCGGCAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.31, C:0.19, G:0.00, T:0.50
Consensus pattern (16 bp):
TTCAAATTCATTTTCA
Found at i:13771327 original size:78 final size:78
Alignment explanation
Indices: 13771189--13771637 Score: 664
Period size: 78 Copynumber: 5.7 Consensus size: 78
13771179 TATCCCCTAG
* *
13771189 TCACCGCACTCAGTTTGCTTCGTTGTACTGGTCACAGCTGCTGCAACATCTTGTGTTTTAGATAT
1 TCACAGCAGTCAGTTTGCTTCGTTGTACTGGTCACAGCTGCTGCAACATCTTGTGTTTTAGATAT
* *
13771254 GCTTGTCCACAAA
66 GCTTGTCCCCCAA
* *
13771267 TCACAGCAGTCAGTTTACTTCGTTGTACTGGTCACAGCTGCTGTAACATCTTGTGTTTTAGATAT
1 TCACAGCAGTCAGTTTGCTTCGTTGTACTGGTCACAGCTGCTGCAACATCTTGTGTTTTAGATAT
*
13771332 GCTTGTCCCTCAA
66 GCTTGTCCCCCAA
*
13771345 TCACAACGCAGTCAGTTTACTTCGTTGTACTGGTCACAGCTGCTGCAACATCTTGTGTTTTAGAT
1 TCAC-A-GCAGTCAGTTTGCTTCGTTGTACTGGTCACAGCTGCTGCAACATCTTGTGTTTTAGAT
**
13771410 ATGCTTGTCTTCCAA
64 ATGCTTGTCCCCCAA
* * * *
13771425 TCACAACAGTCATTTTGCTTCGTTGTTCTGGTCACAGCTGTTGCAACATCTTGTGTTTTAGATAT
1 TCACAGCAGTCAGTTTGCTTCGTTGTACTGGTCACAGCTGCTGCAACATCTTGTGTTTTAGATAT
13771490 GCTTGTCCCCCAA
66 GCTTGTCCCCCAA
* * * *
13771503 TCATAGCACTCAGTTTGCTTCATTGTACTGGTCACAGCTGCTGCAGCATCTTGTGTTTTAGATAT
1 TCACAGCAGTCAGTTTGCTTCGTTGTACTGGTCACAGCTGCTGCAACATCTTGTGTTTTAGATAT
13771568 GCTTGTCCCCCAA
66 GCTTGTCCCCCAA
* * * * * *
13771581 TCACAGCAGTCATTTTGCTTCGTTGTTCTAGTCATAGTTGCTGCAACATCATGTGTT
1 TCACAGCAGTCAGTTTGCTTCGTTGTACTGGTCACAGCTGCTGCAACATCTTGTGTT
13771638 GCAAATATCA
Statistics
Matches: 333, Mismatches: 36, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
78 258 0.77
79 2 0.01
80 73 0.22
ACGTcount: A:0.20, C:0.24, G:0.19, T:0.37
Consensus pattern (78 bp):
TCACAGCAGTCAGTTTGCTTCGTTGTACTGGTCACAGCTGCTGCAACATCTTGTGTTTTAGATAT
GCTTGTCCCCCAA
Found at i:13771486 original size:158 final size:157
Alignment explanation
Indices: 13771193--13771637 Score: 694
Period size: 158 Copynumber: 2.8 Consensus size: 157
13771183 CCCTAGTCAC
13771193 CGCACTCAGTTTGCTTCGTTGTACTGGTCACAGCTGCTGCAACATCTTGTGTTTTAGATATGCTT
1 CGCACTCAGTTTGCTTCGTTGTACTGGTCACAGCTGCTGCAACATCTTGTGTTTTAGATATGCTT
* * * * *
13771258 GTCCACAAATCACAGCAGTCAGTTTACTTCGTTGTACTGGTCACAGCTGCTGTAACATCTTGTGT
66 GTCCACCAATCACAGCAGTCATTTTGCTTCGTTGTTCTGGTCACAGCTGCTGCAACATCTTGTGT
*
13771323 TTTAGATATGCTTGTCCCTCAATCACAA
131 TTTAGATATGCTTGTCCCCCAATCA-AA
* *
13771351 CGCAGTCAGTTTACTTCGTTGTACTGGTCACAGCTGCTGCAACATCTTGTGTTTTAGATATGCTT
1 CGCACTCAGTTTGCTTCGTTGTACTGGTCACAGCTGCTGCAACATCTTGTGTTTTAGATATGCTT
** * *
13771416 GTCTTCCAATCACAACAGTCATTTTGCTTCGTTGTTCTGGTCACAGCTGTTGCAACATCTTGTGT
66 GTCCACCAATCACAGCAGTCATTTTGCTTCGTTGTTCTGGTCACAGCTGCTGCAACATCTTGTGT
*
13771481 TTTAGATATGCTTGTCCCCCAATCATA
131 TTTAGATATGCTTGTCCCCCAATCAAA
* *
13771508 -GCACTCAGTTTGCTTCATTGTACTGGTCACAGCTGCTGCAGCATCTTGTGTTTTAGATATGCTT
1 CGCACTCAGTTTGCTTCGTTGTACTGGTCACAGCTGCTGCAACATCTTGTGTTTTAGATATGCTT
* * * * *
13771572 GTCCCCCAATCACAGCAGTCATTTTGCTTCGTTGTTCTAGTCATAGTTGCTGCAACATCATGTGT
66 GTCCACCAATCACAGCAGTCATTTTGCTTCGTTGTTCTGGTCACAGCTGCTGCAACATCTTGTGT
13771637 T
131 T
13771638 GCAAATATCA
Statistics
Matches: 262, Mismatches: 25, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
156 118 0.45
157 1 0.00
158 143 0.55
ACGTcount: A:0.20, C:0.24, G:0.19, T:0.37
Consensus pattern (157 bp):
CGCACTCAGTTTGCTTCGTTGTACTGGTCACAGCTGCTGCAACATCTTGTGTTTTAGATATGCTT
GTCCACCAATCACAGCAGTCATTTTGCTTCGTTGTTCTGGTCACAGCTGCTGCAACATCTTGTGT
TTTAGATATGCTTGTCCCCCAATCAAA
Found at i:13771978 original size:78 final size:78
Alignment explanation
Indices: 13771849--13772051 Score: 325
Period size: 78 Copynumber: 2.6 Consensus size: 78
13771839 CTGCAAATTA
13771849 CAGTTTGCTTCGTTGTACTGGTCACAGCTGCTGCAACATCTTGTGTTTTAGATATGCTTGTCCCC
1 CAGTTTGCTTCGTTGTACTGGTCACAGCTGCTGCAACATCTTGTGTTTTAGATATGCTTGTCCCC
* *
13771914 CAATCATAGCACT
66 CAATCACAACACT
* *
13771927 CAGTTTGCTTCATTGTACTGGTCACAGCTGCTGCAGCATCTTGTGTTTTAGATATGCTTGTCCCC
1 CAGTTTGCTTCGTTGTACTGGTCACAGCTGCTGCAACATCTTGTGTTTTAGATATGCTTGTCCCC
*
13771992 CAATCACAACAGT
66 CAATCACAACACT
* * * *
13772005 CATTTTGCTTCGTTGTTCTAGTCACAGCTGCTGCAACATCATGTGTT
1 CAGTTTGCTTCGTTGTACTGGTCACAGCTGCTGCAACATCTTGTGTT
13772052 GCAAATATCA
Statistics
Matches: 114, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
78 114 1.00
ACGTcount: A:0.19, C:0.25, G:0.19, T:0.36
Consensus pattern (78 bp):
CAGTTTGCTTCGTTGTACTGGTCACAGCTGCTGCAACATCTTGTGTTTTAGATATGCTTGTCCCC
CAATCACAACACT
Found at i:13772208 original size:414 final size:414
Alignment explanation
Indices: 13771438--13772264 Score: 1476
Period size: 414 Copynumber: 2.0 Consensus size: 414
13771428 CAACAGTCAT
* *
13771438 TTTGCTTCGTTGTTCTGGTCACAGCTGTTGCAACATCTTGTGTTTTAGATATGCTTGTCCCCCAA
1 TTTGCTTCGTTGTACTGGTCACAGCTGCTGCAACATCTTGTGTTTTAGATATGCTTGTCCCCCAA
13771503 TCATAGCACTCAGTTTGCTTCATTGTACTGGTCACAGCTGCTGCAGCATCTTGTGTTTTAGATAT
66 TCATAGCACTCAGTTTGCTTCATTGTACTGGTCACAGCTGCTGCAGCATCTTGTGTTTTAGATAT
* * *
13771568 GCTTGTCCCCCAATCACAGCAGTCATTTTGCTTCGTTGTTCTAGTCATAGTTGCTGCAACATCAT
131 GCTTGTCCCCCAATCACAACAGTCATTTTGCTTCGTTGTTCTAGTCACAGCTGCTGCAACATCAT
13771633 GTGTTGCAAATATCATATGCAGACTCTATCAAATTATGTCAAACTCAAGTTATGCCAGTATCATT
196 GTGTTGCAAATATCATATGCAGACTCTATCAAATTATGTCAAACTCAAGTTATGCCAGTATCATT
* ** *
13771698 TAATGCAAATATCAATGGCAACTTCAAAACAATCCCTAACAATTGACATTTGAGGAGCCACTATC
261 GAATGCAAATATCAATGGCAACTTCAAAACAATCCCTAACAATTGACATTAAAGGAGACACTATC
* * *
13771763 TTCAAGTACAACACCTATAACGTTATCAGAGTTTGTATTCTGCATTGGACAATAGTTTCATGTGT
326 TTCAAGTACAACACCTATAACGTTATCAGAGTTTGGAGTCTGCATTGGAAAATAGTTTCATGTGT
13771828 GCCCAGGTTGTCTGCAAATTACAG
391 GCCCAGGTTGTCTGCAAATTACAG
13771852 TTTGCTTCGTTGTACTGGTCACAGCTGCTGCAACATCTTGTGTTTTAGATATGCTTGTCCCCCAA
1 TTTGCTTCGTTGTACTGGTCACAGCTGCTGCAACATCTTGTGTTTTAGATATGCTTGTCCCCCAA
13771917 TCATAGCACTCAGTTTGCTTCATTGTACTGGTCACAGCTGCTGCAGCATCTTGTGTTTTAGATAT
66 TCATAGCACTCAGTTTGCTTCATTGTACTGGTCACAGCTGCTGCAGCATCTTGTGTTTTAGATAT
13771982 GCTTGTCCCCCAATCACAACAGTCATTTTGCTTCGTTGTTCTAGTCACAGCTGCTGCAACATCAT
131 GCTTGTCCCCCAATCACAACAGTCATTTTGCTTCGTTGTTCTAGTCACAGCTGCTGCAACATCAT
13772047 GTGTTGCAAATATCATATGCAGACTCTATCAAATTATGTCAAACTCAAGTTATGCCAGTATCATT
196 GTGTTGCAAATATCATATGCAGACTCTATCAAATTATGTCAAACTCAAGTTATGCCAGTATCATT
* * * *
13772112 GAATGCAAATATCAATGGCCAGTTCGAAACAATCCCTAACAATTGACGTCTAAAGG-GACACTAT
261 GAATGCAAATATCAATGGCAACTTCAAAACAATCCCTAACAATTGACAT-TAAAGGAGACACTAT
* *
13772176 CTTCAGGTACAACACCTATAACGTTATCAGAGTTTGGAGTCTGCATTGGAAAATAGTTTCGTGTG
325 CTTCAAGTACAACACCTATAACGTTATCAGAGTTTGGAGTCTGCATTGGAAAATAGTTTCATGTG
13772241 TGCCCAGGTTGTCTGCAAATTACA
390 TGCCCAGGTTGTCTGCAAATTACA
13772265 CATGCCTTGT
Statistics
Matches: 394, Mismatches: 18, Indels: 2
0.95 0.04 0.00
Matches are distributed among these distances:
414 390 0.99
415 4 0.01
ACGTcount: A:0.26, C:0.22, G:0.18, T:0.34
Consensus pattern (414 bp):
TTTGCTTCGTTGTACTGGTCACAGCTGCTGCAACATCTTGTGTTTTAGATATGCTTGTCCCCCAA
TCATAGCACTCAGTTTGCTTCATTGTACTGGTCACAGCTGCTGCAGCATCTTGTGTTTTAGATAT
GCTTGTCCCCCAATCACAACAGTCATTTTGCTTCGTTGTTCTAGTCACAGCTGCTGCAACATCAT
GTGTTGCAAATATCATATGCAGACTCTATCAAATTATGTCAAACTCAAGTTATGCCAGTATCATT
GAATGCAAATATCAATGGCAACTTCAAAACAATCCCTAACAATTGACATTAAAGGAGACACTATC
TTCAAGTACAACACCTATAACGTTATCAGAGTTTGGAGTCTGCATTGGAAAATAGTTTCATGTGT
GCCCAGGTTGTCTGCAAATTACAG
Found at i:13775702 original size:111 final size:111
Alignment explanation
Indices: 13775406--13775932 Score: 734
Period size: 111 Copynumber: 4.7 Consensus size: 111
13775396 GTCACTTAAC
13775406 ATATAAAAACCAGTCACGCAAGCCTAAAAAACTACTGAACAAAAGCCTCAAAACAACACATGAAT
1 ATATAAAAACCAGTCACGCAAGCCTAAAAAACTACTGAACAAAAGCCTCAAAACAACACATGAAT
* *
13775471 TGCACAAGTCACGTGCCACCATTCTCGTAATACATAACAACAGGTAACGCAAT
66 TGCACAAGTCACGCGCCACCA--CTC---ATGC-T-ACAACAGGTAACGCAAT
13775524 ATATAAAAACCAGTCACGCAAGCCTAAAAAACTACTGAACAAAAGCCTCAAAACAACACATGAAT
1 ATATAAAAACCAGTCACGCAAGCCTAAAAAACTACTGAACAAAAGCCTCAAAACAACACATGAAT
* * *
13775589 TGCAGAACTCACGCGCCACCACTCATGCTATAACAGGTAACGCAAT
66 TGCACAAGTCACGCGCCACCACTCATGCTACAACAGGTAACGCAAT
* *
13775635 ATATAAAAACCAGTCAAGCAAGCCTAAAAAACTACTGAACAAAAGCCTCAAAACAGCACATGAAT
1 ATATAAAAACCAGTCACGCAAGCCTAAAAAACTACTGAACAAAAGCCTCAAAACAACACATGAAT
* * * * * *
13775700 TGCATAAGTCACGTGTCACCATTCAAGCTACAACAGGTAATGCAAT
66 TGCACAAGTCACGCGCCACCACTCATGCTACAACAGGTAACGCAAT
* * *
13775746 ATATAAAAACCAGTCACGCAAGACTAAAAAACTACTAAACAAAAGCCTCAAAATAACACATGAAT
1 ATATAAAAACCAGTCACGCAAGCCTAAAAAACTACTGAACAAAAGCCTCAAAACAACACATGAAT
* * *
13775811 TGCACAAGTCACGCACCACCACTC-TCGCTATAATAGGTAACGCAAT
66 TGCACAAGTCACGCGCCACCACTCAT-GCTACAACAGGTAACGCAAT
* * ** *
13775857 ATCT-AAAACCAGTCACACCCTGCCTAAAAAACTACTGAACAAAAGCCTCAAAACAACATATGAA
1 ATATAAAAACCAGTCAC-GCAAGCCTAAAAAACTACTGAACAAAAGCCTCAAAACAACACATGAA
*
13775921 TTGCATAAGTCA
65 TTGCACAAGTCA
13775933 GTCATGCATC
Statistics
Matches: 369, Mismatches: 38, Indels: 11
0.88 0.09 0.03
Matches are distributed among these distances:
110 12 0.03
111 267 0.72
112 1 0.00
113 3 0.01
116 3 0.01
118 83 0.22
ACGTcount: A:0.45, C:0.26, G:0.12, T:0.17
Consensus pattern (111 bp):
ATATAAAAACCAGTCACGCAAGCCTAAAAAACTACTGAACAAAAGCCTCAAAACAACACATGAAT
TGCACAAGTCACGCGCCACCACTCATGCTACAACAGGTAACGCAAT
Found at i:13775843 original size:222 final size:228
Alignment explanation
Indices: 13775406--13775932 Score: 809
Period size: 222 Copynumber: 2.3 Consensus size: 228
13775396 GTCACTTAAC
*
13775406 ATATAAAAACCAGTCACGCAAGCCTAAAAAACTACTGAACAAAAGCCTCAAAACAACACATGAAT
1 ATATAAAAACCAGTCAAGCAAGCCTAAAAAACTACTGAACAAAAGCCTCAAAACAACACATGAAT
*
13775471 TGCACAAGTCACGTGCCACCATTCTCGTAATACATAACAACAGGTAACGCAATATATAAAAACCA
66 TGCATAAGTCACGTGCCACCATTCTCG-AATACATAACAACAGGTAACGCAATATATAAAAACCA
* * *
13775536 GTCACGCAAGCCTAAAAAACTACTGAACAAAAGCCTCAAAACAACACATGAATTGCAGAACTCAC
130 GTCACGCAAGACTAAAAAACTACTAAACAAAAGCCTCAAAACAACACATGAATTGCACAACTCAC
*
13775601 GCGCCACCACTCATGCTATAACAGGTAACGCAAT
195 GCACCACCACTCATGCTATAACAGGTAACGCAAT
*
13775635 ATATAAAAACCAGTCAAGCAAGCCTAAAAAACTACTGAACAAAAGCCTCAAAACAGCACATGAAT
1 ATATAAAAACCAGTCAAGCAAGCCTAAAAAACTACTGAACAAAAGCCTCAAAACAACACATGAAT
* * *
13775700 TGCATAAGTCACGTGTCACCA-T-TC-AA-GC-T-ACAACAGGTAATGCAATATATAAAAACCAG
66 TGCATAAGTCACGTGCCACCATTCTCGAATACATAACAACAGGTAACGCAATATATAAAAACCAG
* *
13775759 TCACGCAAGACTAAAAAACTACTAAACAAAAGCCTCAAAATAACACATGAATTGCACAAGTCACG
131 TCACGCAAGACTAAAAAACTACTAAACAAAAGCCTCAAAACAACACATGAATTGCACAACTCACG
*
13775824 CACCACCACTC-TCGCTATAATAGGTAACGCAAT
196 CACCACCACTCAT-GCTATAACAGGTAACGCAAT
* * ** *
13775857 ATCT-AAAACCAGTCACACCCTGCCTAAAAAACTACTGAACAAAAGCCTCAAAACAACATATGAA
1 ATATAAAAACCAGTCA-AGCAAGCCTAAAAAACTACTGAACAAAAGCCTCAAAACAACACATGAA
13775921 TTGCATAAGTCA
65 TTGCATAAGTCA
13775933 GTCATGCATC
Statistics
Matches: 277, Mismatches: 19, Indels: 11
0.90 0.06 0.04
Matches are distributed among these distances:
221 12 0.04
222 176 0.64
223 1 0.00
224 1 0.00
225 2 0.01
227 2 0.01
228 1 0.00
229 82 0.30
ACGTcount: A:0.45, C:0.26, G:0.12, T:0.17
Consensus pattern (228 bp):
ATATAAAAACCAGTCAAGCAAGCCTAAAAAACTACTGAACAAAAGCCTCAAAACAACACATGAAT
TGCATAAGTCACGTGCCACCATTCTCGAATACATAACAACAGGTAACGCAATATATAAAAACCAG
TCACGCAAGACTAAAAAACTACTAAACAAAAGCCTCAAAACAACACATGAATTGCACAACTCACG
CACCACCACTCATGCTATAACAGGTAACGCAAT
Found at i:13776609 original size:30 final size:30
Alignment explanation
Indices: 13776568--13776627 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
13776558 TCCCCTGCTG
* *
13776568 GAATATGTGCAACTGGTCCCTCACACTCAA
1 GAATATATGCAACTGGTCCCCCACACTCAA
*
13776598 GAATATATGCAATTGGTCCCCCACACTCAA
1 GAATATATGCAACTGGTCCCCCACACTCAA
13776628 AGGCACTTCC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.32, C:0.30, G:0.15, T:0.23
Consensus pattern (30 bp):
GAATATATGCAACTGGTCCCCCACACTCAA
Found at i:13778569 original size:19 final size:19
Alignment explanation
Indices: 13778542--13778579 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
13778532 CCATTTGACT
13778542 TATTAGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
*
13778561 TATTGGAGTATGATTTGAG
1 TATTAGAGTATGATTTGAG
13778580 GTTAAGAAGT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.29, C:0.00, G:0.29, T:0.42
Consensus pattern (19 bp):
TATTAGAGTATGATTTGAG
Found at i:13781978 original size:20 final size:20
Alignment explanation
Indices: 13781933--13781970 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
13781923 TTTTGGCCCC
13781933 ATTTGACTTATTGGAGTATA
1 ATTTGACTTATTGGAGTATA
13781953 ATTTGACTTATTGGAGTA
1 ATTTGACTTATTGGAGTA
13781971 AGATTTGAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.29, C:0.05, G:0.21, T:0.45
Consensus pattern (20 bp):
ATTTGACTTATTGGAGTATA
Found at i:13782054 original size:27 final size:27
Alignment explanation
Indices: 13782024--13782081 Score: 73
Period size: 28 Copynumber: 2.1 Consensus size: 27
13782014 TTGGAGTAAA
*
13782024 AGGGTAAAATGGTAATTTTGCCACC-CC
1 AGGGCAAAATGGTAATTTT-CCACCACC
*
13782051 AGGGGCAAAATTGTAATTTTCCACCACC
1 A-GGGCAAAATGGTAATTTTCCACCACC
13782079 AGG
1 AGG
13782082 ACATTTTTTC
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
27 8 0.30
28 19 0.70
ACGTcount: A:0.31, C:0.22, G:0.22, T:0.24
Consensus pattern (27 bp):
AGGGCAAAATGGTAATTTTCCACCACC
Found at i:13783235 original size:15 final size:16
Alignment explanation
Indices: 13783205--13783239 Score: 52
Period size: 16 Copynumber: 2.2 Consensus size: 16
13783195 ATAAAATATT
13783205 ATGTTTTTCAATTAAA
1 ATGTTTTTCAATTAAA
* *
13783221 ATGTTTTTTAATAAAA
1 ATGTTTTTCAATTAAA
13783237 ATG
1 ATG
13783240 AAATTTATAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.40, C:0.03, G:0.09, T:0.49
Consensus pattern (16 bp):
ATGTTTTTCAATTAAA
Found at i:13787459 original size:45 final size:45
Alignment explanation
Indices: 13787395--13787481 Score: 138
Period size: 45 Copynumber: 1.9 Consensus size: 45
13787385 GCAAACGAAT
* * *
13787395 ATGCAGATGTAGATGCAGTCAATGCAGTTGGAGATCTAGCAGGCG
1 ATGCAAATGCAGATGCAGTCAATGCAGTTGGAGATCCAGCAGGCG
*
13787440 ATGCAAATGCAGATGCAGTCAATGTAGTTGGAGATCCAGCAG
1 ATGCAAATGCAGATGCAGTCAATGCAGTTGGAGATCCAGCAG
13787482 TCAATGCAGT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
45 38 1.00
ACGTcount: A:0.31, C:0.16, G:0.31, T:0.22
Consensus pattern (45 bp):
ATGCAAATGCAGATGCAGTCAATGCAGTTGGAGATCCAGCAGGCG
Found at i:13787514 original size:24 final size:24
Alignment explanation
Indices: 13787409--13787503 Score: 88
Period size: 24 Copynumber: 4.1 Consensus size: 24
13787399 AGATGTAGAT
* *
13787409 GCAGTCAATGCAGTTGGAGATCTA
1 GCAGTCAATGCAGTTGAAGATCCA
* * ** *
13787433 GCAGGCGATGCAAATGCAGAT---
1 GCAGTCAATGCAGTTGAAGATCCA
* *
13787454 GCAGTCAATGTAGTTGGAGATCCA
1 GCAGTCAATGCAGTTGAAGATCCA
13787478 GCAGTCAATGCAGTTGAAGATCCA
1 GCAGTCAATGCAGTTGAAGATCCA
13787502 GC
1 GC
13787504 GAGCGATGCA
Statistics
Matches: 55, Mismatches: 13, Indels: 6
0.74 0.18 0.08
Matches are distributed among these distances:
21 15 0.27
24 40 0.73
ACGTcount: A:0.31, C:0.19, G:0.29, T:0.21
Consensus pattern (24 bp):
GCAGTCAATGCAGTTGAAGATCCA
Found at i:13789166 original size:26 final size:26
Alignment explanation
Indices: 13789137--13789187 Score: 93
Period size: 26 Copynumber: 2.0 Consensus size: 26
13789127 AACATTATTC
*
13789137 TGTATCATTTCCATATTATTCTTTGT
1 TGTATCATTTACATATTATTCTTTGT
13789163 TGTATCATTTACATATTATTCTTTG
1 TGTATCATTTACATATTATTCTTTG
13789188 AATTCATTCA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.22, C:0.14, G:0.08, T:0.57
Consensus pattern (26 bp):
TGTATCATTTACATATTATTCTTTGT
Found at i:13789316 original size:100 final size:100
Alignment explanation
Indices: 13789206--13789402 Score: 358
Period size: 100 Copynumber: 2.0 Consensus size: 100
13789196 CATATGATAA
* *
13789206 GCATTCGGGTCCAATAAGAACGACATTGTTTTTTCTTATTCATATCGTAAAATCTGTTAGTATTT
1 GCATACGGGTCCAATAAGAACAACATTGTTTTTTCTTATTCATATCGTAAAATCTGTTAGTATTT
13789271 TACACAATTTACATGACAGCGTTCATTCGTTTTTT
66 TACACAATTTACATGACAGCGTTCATTCGTTTTTT
**
13789306 GCATACGGGTCCAATAAGAACAACATTGTTTTTTCTTATTCATATCGTAATGTCTGTTAGTATTT
1 GCATACGGGTCCAATAAGAACAACATTGTTTTTTCTTATTCATATCGTAAAATCTGTTAGTATTT
13789371 TACACAATTTACATGACAGCGTTCATTCGTTT
66 TACACAATTTACATGACAGCGTTCATTCGTTT
13789403 GCATATGCCA
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
100 93 1.00
ACGTcount: A:0.27, C:0.17, G:0.14, T:0.41
Consensus pattern (100 bp):
GCATACGGGTCCAATAAGAACAACATTGTTTTTTCTTATTCATATCGTAAAATCTGTTAGTATTT
TACACAATTTACATGACAGCGTTCATTCGTTTTTT
Done.