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 58 of 59
Found at i:21138225 original size:86 final size:86
Alignment explanation
Indices: 21138005--21138231 Score: 186
Period size: 86 Copynumber: 2.6 Consensus size: 86
21137995 AATTAAGTAG
* * *
21138005 TATCAAGGATATCATCTATTATGCTTGGAATCGTAGTACCCCAAATCAAGGATATCAAGTACTAG
1 TATCAAGGATATCATCTATTATGCTTGGAATTGTAGCATCCCAAATCAAGGATATCAAGTACTAG
* * * *
21138070 GCTTGGAAGCTTAGCACTATA
66 GCTTGGAACCATAACACCATA
* *** * * * * * * *** * *
21138091 GATCAAGGATATCAAGAATAATGATTTGAACTATATCATGATAGATCAAGGATATCAAGCT-TTA
1 TATCAAGGATATCATCTATTATGCTTGGAATTGTAGCATCCCAAATCAAGGATATCAAG-TACTA
* * *
21138155 TGCTTGGTACCATAACACCCTA
65 GGCTTGGAACCATAACACCATA
* * *
21138177 TATCAAGGATATCATTTATTATGCTTGGAATTGTAGCATTCCAAATCAAGAATAT
1 TATCAAGGATATCATCTATTATGCTTGGAATTGTAGCATCCCAAATCAAGGATAT
21138232 TTAGTGGATA
Statistics
Matches: 100, Mismatches: 40, Indels: 2
0.70 0.28 0.01
Matches are distributed among these distances:
86 99 0.99
87 1 0.01
ACGTcount: A:0.36, C:0.16, G:0.17, T:0.31
Consensus pattern (86 bp):
TATCAAGGATATCATCTATTATGCTTGGAATTGTAGCATCCCAAATCAAGGATATCAAGTACTAG
GCTTGGAACCATAACACCATA
Found at i:21138462 original size:43 final size:43
Alignment explanation
Indices: 21138389--21138472 Score: 107
Period size: 43 Copynumber: 2.0 Consensus size: 43
21138379 GATATCATGA
* *
21138389 CAAATCAATGATATCAAGCATTGGAATTGGAATCGTAGCACCT
1 CAAATCAAAGATATCAAGCATTGGAATTGGAAACGTAGCACCT
* * *
21138432 CAAATCAAAGATATCAAGTATTATG-TTTGGAAACGTAGCAC
1 CAAATCAAAGATATCAAGCATT-GGAATTGGAAACGTAGCAC
21138473 AATAAATCAA
Statistics
Matches: 35, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 34 0.97
44 1 0.03
ACGTcount: A:0.39, C:0.17, G:0.18, T:0.26
Consensus pattern (43 bp):
CAAATCAAAGATATCAAGCATTGGAATTGGAAACGTAGCACCT
Found at i:21138568 original size:43 final size:43
Alignment explanation
Indices: 21138521--21138603 Score: 96
Period size: 43 Copynumber: 1.9 Consensus size: 43
21138511 CATCTATTTT
* * *
21138521 GCTTGGAACCATAGTACCCCAGA-TCAAGGATATCAAGCATTAG
1 GCTTGAAACCATAGCACCACAGAGT-AAGGATATCAAGCATTAG
* * *
21138564 GCTTGAAAGCGTAGCACTACAGAGTAAGGATATCAAGCAT
1 GCTTGAAACCATAGCACCACAGAGTAAGGATATCAAGCAT
21138604 AATGATTTGA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
43 32 0.97
44 1 0.03
ACGTcount: A:0.36, C:0.20, G:0.23, T:0.20
Consensus pattern (43 bp):
GCTTGAAACCATAGCACCACAGAGTAAGGATATCAAGCATTAG
Found at i:21140569 original size:13 final size:13
Alignment explanation
Indices: 21140551--21140575 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
21140541 TTCCAGAAAA
21140551 TTTATAAAATCAT
1 TTTATAAAATCAT
21140564 TTTATAAAATCA
1 TTTATAAAATCA
21140576 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:21155486 original size:12 final size:12
Alignment explanation
Indices: 21155469--21155493 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
21155459 TGATAGATAG
21155469 AATTAAATTTTT
1 AATTAAATTTTT
21155481 AATTAAATTTTT
1 AATTAAATTTTT
21155493 A
1 A
21155494 TATTTGAACT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (12 bp):
AATTAAATTTTT
Found at i:21162229 original size:25 final size:25
Alignment explanation
Indices: 21162179--21162230 Score: 77
Period size: 25 Copynumber: 2.1 Consensus size: 25
21162169 TATTAAAATC
**
21162179 AATGACAAATCTTTTGTTTGACCCG
1 AATGACAAATCTTTTGTTCAACCCG
*
21162204 AATGACAAATCTTTTGTTCAATCCG
1 AATGACAAATCTTTTGTTCAACCCG
21162229 AA
1 AA
21162231 CGCAGGGCAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.33, C:0.19, G:0.13, T:0.35
Consensus pattern (25 bp):
AATGACAAATCTTTTGTTCAACCCG
Found at i:21166938 original size:354 final size:356
Alignment explanation
Indices: 21166286--21166965 Score: 1089
Period size: 354 Copynumber: 1.9 Consensus size: 356
21166276 ATTGAGAATG
* * *
21166286 TGTAAGACATGTACCATGGCATCTTGAGGCATGGTTTCACTCTTCATGGTCATGTTTACTTGGCT
1 TGTAAGACATGTACCATGGCATCTTGAGGCATGGTTTCACTCTTCATGGTCACGTTCACTTGACT
* * * * *
21166351 ACTCTGAAGTCCAACCAGGTCAAGCCTTTCTTTCATGCTAACAACTAAAACCTTGTAATTTTGAT
66 ACTCTCAAGTCCAACCAAGCCAAGCCTTTCTTTCATGCTAACAAC-AAAACCTTATAATTTCGAT
*
21166416 ATGGAAAAATTGTTAGACAGAATTAAATTTTTATATTTGAGACAAATTATGATTAAGATGTATAA
130 ATGGAAAAATTGTTAGACAGAATTAAATTTTTATATTTGAGACAAATTATGATTAAGATATATAA
* *
21166481 AAATTAAATTAAGACTCAGTTGATACCTGTGCTTTACAATGAGATGTATGGTGAGTAAAGGTCAA
195 AAATTAAATTAAGACTCAGCTGATACCCGTGCTTTACAATGAGATGTATGGTGAGTAAAGGTCAA
21166546 GCTCGTGATCGTAATATCAAGATCTTTTTTAAGTGTTTGATTAATGTGCATTTTGTAAATTTTAT
260 GCTCGTGATCGTAATATCAAGATCTTTTTTAAGTGTTTGATTAATGTGCATTTTGTAAATTTTAT
21166611 TGACATTCAATGTATGGAGATACCGTGGCATA
325 TGACATTCAATGTATGGAGATACCGTGGCATA
*
21166643 TGTAAGACATGTACCATGGCATCTTGGGGCATGGTTTCACTCTTCATGGTCACGTTCACTTGACT
1 TGTAAGACATGTACCATGGCATCTTGAGGCATGGTTTCACTCTTCATGGTCACGTTCACTTGACT
* * * *
21166708 ACTCTCAAGTCTAGCCAAGCCAAGCCTTTGTTTCATGCTAAC-A-AAAGCCTTATAATTTCGATA
66 ACTCTCAAGTCCAACCAAGCCAAGCCTTTCTTTCATGCTAACAACAAAACCTTATAATTTCGATA
*
21166771 TTGG-AAAATTGTTAGATAGAATTAAATTTTTATATTTGAGACAAATTATGATTAAGATATATAA
131 -TGGAAAAATTGTTAGACAGAATTAAATTTTTATATTTGAGACAAATTATGATTAAGATATATAA
* * * **
21166835 AAATTAAATTAAGACTCAGCTGATACCCGTGCTTTGCAATGAGATTTATGGTGGGTAAAGGT-TG
195 AAATTAAATTAAGACTCAGCTGATACCCGTGCTTTACAATGAGATGTATGGTGAGTAAAGGTCAA
* *
21166899 GCTTCGTGATCGTGATATCAAGATCTTTTTTAAGTGTTTGATTGATGTGCATTTTGTAAATTTTA
260 GC-TCGTGATCGTAATATCAAGATCTTTTTTAAGTGTTTGATTAATGTGCATTTTGTAAATTTTA
21166964 TT
324 TT
21166966 AGCACTATGT
Statistics
Matches: 297, Mismatches: 24, Indels: 7
0.91 0.07 0.02
Matches are distributed among these distances:
353 2 0.01
354 194 0.65
355 3 0.01
356 1 0.00
357 97 0.33
ACGTcount: A:0.31, C:0.14, G:0.19, T:0.37
Consensus pattern (356 bp):
TGTAAGACATGTACCATGGCATCTTGAGGCATGGTTTCACTCTTCATGGTCACGTTCACTTGACT
ACTCTCAAGTCCAACCAAGCCAAGCCTTTCTTTCATGCTAACAACAAAACCTTATAATTTCGATA
TGGAAAAATTGTTAGACAGAATTAAATTTTTATATTTGAGACAAATTATGATTAAGATATATAAA
AATTAAATTAAGACTCAGCTGATACCCGTGCTTTACAATGAGATGTATGGTGAGTAAAGGTCAAG
CTCGTGATCGTAATATCAAGATCTTTTTTAAGTGTTTGATTAATGTGCATTTTGTAAATTTTATT
GACATTCAATGTATGGAGATACCGTGGCATA
Found at i:21170999 original size:354 final size:353
Alignment explanation
Indices: 21170342--21171038 Score: 997
Period size: 354 Copynumber: 2.0 Consensus size: 353
21170332 TTGAGAACGA
* **
21170342 GTAAGACATGTACCATGGCATCTTGAGGCATGGTTTCACTCTTCATGGTTATGTTTACTTGGCTA
1 GTAAGACATGTACCATGGCATCTTGAGGCATGGTTTCACTCTTCATGGTCACATTTACTTGGCTA
** *
21170407 CTCTAAAGTCCAACCGAGCCAAACCTTTCTTTCACCCTAACAACAAAAGCCTTATAATTTTGATA
66 CTCTAAAGTCCAACAAAGCCAAACCTTTCTTTCACCCT-A-AACAAAAGCCTTATAACTTTGATA
* * *
21170472 TTGGAAATTGTTAGACAGGATTTAATTTTTACATTTGAACTAAATTATTATTAAGATGTATAAAA
129 TTGGAAATTGTTAGACAGAATTAAATTTTTACATTTGAACTAAATTATGATTAAGATGTATAAAA
* * *
21170537 ATTAAATTAAGACTCAGTTGATACCCATGCTTTGCAATAAGATTTATGGTGGGTAAAGGTCGACT
194 ATTAAATTAAGACTCAATTGATACCCATGCTTTGCAATAAGACTAATGGTGGGTAAAGGTCGACT
* * *
21170602 TCGTGATCATAATATCAAGAACTTTTTTAAGTGTTTGATTAATGCGCAT-TATGTAAATTTTATT
259 TCATGATCATAATATCAAGAACTTTTCTAAGTGTTTAATTAATGCGCATCT-TGTAAATTTTATT
*
21170666 -GACATTCTATGTATGGAGATGCCATGGCATGT
323 AG-CA-TCTATGTAAGGAGATGCCATGGCATGT
*
21170698 GTAAGACATGTACCATGGCATCTTGAGGCATGGTTTCACTCTTCATGGTCACATTTACTTGGTTA
1 GTAAGACATGTACCATGGCATCTTGAGGCATGGTTTCACTCTTCATGGTCACATTTACTTGGCTA
* * * * * ** *
21170763 CTCTCAAGTCTAGCAAAGCCAAGCCTTTGTTTCATGCT-AACAAAAGCCTTATTACTTTGATATT
66 CTCTAAAGTCCAACAAAGCCAAACCTTTCTTTCACCCTAAACAAAAGCCTTATAACTTTGATATT
* *
21170827 GGAAAATTGTTAGACAGAATTAAATTTTTATATTTTAACTAAATTATGATTAAGATGTATAAAAA
131 GG-AAATTGTTAGACAGAATTAAATTTTTACATTTGAACTAAATTATGATTAAGATGTATAAAAA
** * * *
21170892 TTAAATTAAGACTCAATTGATACCTGTGCTTTGCAATGAGACTAATGGTGGGTAAAGGTTGGCTT
195 TTAAATTAAGACTCAATTGATACCCATGCTTTGCAATAAGACTAATGGTGGGTAAAGGTCGACTT
* *
21170957 CATGATCGTAATATCAA-AATCTTTTCTAAGTGTTTAATTAATGTGCATCTTGTAAATTTTATTA
260 CATGATCATAATATCAAGAA-CTTTTCTAAGTGTTTAATTAATGCGCATCTTGTAAATTTTATTA
21171021 GCATCTATGTAAGGAGAT
324 GCATCTATGTAAGGAGAT
21171039 AATTCTAAGG
Statistics
Matches: 303, Mismatches: 34, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
353 42 0.14
354 169 0.56
355 2 0.01
356 90 0.30
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.37
Consensus pattern (353 bp):
GTAAGACATGTACCATGGCATCTTGAGGCATGGTTTCACTCTTCATGGTCACATTTACTTGGCTA
CTCTAAAGTCCAACAAAGCCAAACCTTTCTTTCACCCTAAACAAAAGCCTTATAACTTTGATATT
GGAAATTGTTAGACAGAATTAAATTTTTACATTTGAACTAAATTATGATTAAGATGTATAAAAAT
TAAATTAAGACTCAATTGATACCCATGCTTTGCAATAAGACTAATGGTGGGTAAAGGTCGACTTC
ATGATCATAATATCAAGAACTTTTCTAAGTGTTTAATTAATGCGCATCTTGTAAATTTTATTAGC
ATCTATGTAAGGAGATGCCATGGCATGT
Found at i:21178338 original size:2 final size:2
Alignment explanation
Indices: 21178331--21178367 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
21178321 AACCAACACG
21178331 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
21178368 GTCTAGCTAC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:21179046 original size:21 final size:22
Alignment explanation
Indices: 21179021--21179080 Score: 70
Period size: 22 Copynumber: 2.8 Consensus size: 22
21179011 CGTGCCTATC
*
21179021 TTTCTCTCTATT-TTTCT-CTTT
1 TTTCTCTCT-TTCTTTCTCCCTT
*
21179042 TTTCTTTCTTTCTTTCTCCCTT
1 TTTCTCTCTTTCTTTCTCCCTT
*
21179064 TTTCTTTCTTTCTTTCT
1 TTTCTCTCTTTCTTTCT
21179081 TTGATTTCCT
Statistics
Matches: 35, Mismatches: 2, Indels: 3
0.88 0.05 0.08
Matches are distributed among these distances:
20 2 0.06
21 13 0.37
22 20 0.57
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.72
Consensus pattern (22 bp):
TTTCTCTCTTTCTTTCTCCCTT
Found at i:21179051 original size:4 final size:4
Alignment explanation
Indices: 21179019--21179082 Score: 53
Period size: 4 Copynumber: 16.2 Consensus size: 4
21179009 CCCGTGCCTA
* * * *
21179019 TCTT TCTC TCTAT T-TT TCTCT TTTT TCTT TCTT TCTT TC-T CCCT T-TT
1 TCTT TCTT TCT-T TCTT TCT-T TCTT TCTT TCTT TCTT TCTT TCTT TCTT
21179066 TCTT TCTT TCTT TCTT T
1 TCTT TCTT TCTT TCTT T
21179083 GATTTCCTTC
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
3 6 0.12
4 38 0.79
5 4 0.08
ACGTcount: A:0.02, C:0.27, G:0.00, T:0.72
Consensus pattern (4 bp):
TCTT
Found at i:21182572 original size:2 final size:2
Alignment explanation
Indices: 21182560--21182612 Score: 97
Period size: 2 Copynumber: 26.0 Consensus size: 2
21182550 ATAAAACTCA
21182560 AT AT GAT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT -AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21182603 AT AT AT AT AT
1 AT AT AT AT AT
21182613 GCAACTTTAT
Statistics
Matches: 50, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
2 48 0.96
3 2 0.04
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (2 bp):
AT
Found at i:21183353 original size:51 final size:51
Alignment explanation
Indices: 21183292--21183513 Score: 340
Period size: 51 Copynumber: 4.4 Consensus size: 51
21183282 CACGAACTTG
* * * * * *
21183292 GACTTGGTCTTGATCACAAACTTGCTTGATCTTCACATCAATGGTCTTCAC
1 GACTTAGTCTTGATCACGAACGTGCTTGATCTTCGCGTCAAGGGTCTTCAC
21183343 GACTTAGTCTTGATCACGAACGTGCTTGATCTTCGCGTCAAGGGTCTTCAC
1 GACTTAGTCTTGATCACGAACGTGCTTGATCTTCGCGTCAAGGGTCTTCAC
*
21183394 GACTTAGTCTTGATCACGAACGTGCTTGATCTTCGCGTCAAGGGTCTTCAA
1 GACTTAGTCTTGATCACGAACGTGCTTGATCTTCGCGTCAAGGGTCTTCAC
* *
21183445 GACTTAGTCTTGATCACGAAC--ACTTGATCTTCGCTTCAAGGGTCTTCAC
1 GACTTAGTCTTGATCACGAACGTGCTTGATCTTCGCGTCAAGGGTCTTCAC
*
21183494 GACTTAGTCTTGATTACGAA
1 GACTTAGTCTTGATCACGAA
21183514 TCTTGATCAC
Statistics
Matches: 160, Mismatches: 11, Indels: 2
0.92 0.06 0.01
Matches are distributed among these distances:
49 44 0.28
51 116 0.73
ACGTcount: A:0.23, C:0.24, G:0.20, T:0.33
Consensus pattern (51 bp):
GACTTAGTCTTGATCACGAACGTGCTTGATCTTCGCGTCAAGGGTCTTCAC
Found at i:21183590 original size:23 final size:23
Alignment explanation
Indices: 21183540--21183592 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
21183530 CACTTGATAT
21183540 CTTGATCACGAACTTCGTTGCCG
1 CTTGATCACGAACTTCGTTGCCG
* **
21183563 TTTGATCACGAACTTCGTTGTTG
1 CTTGATCACGAACTTCGTTGCCG
21183586 CTTGATC
1 CTTGATC
21183593 TTCACTTCAG
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.17, C:0.25, G:0.21, T:0.38
Consensus pattern (23 bp):
CTTGATCACGAACTTCGTTGCCG
Found at i:21183651 original size:17 final size:17
Alignment explanation
Indices: 21183629--21183668 Score: 62
Period size: 17 Copynumber: 2.4 Consensus size: 17
21183619 TTGATCTTTG
*
21183629 AAATGCTCTCAATCTTC
1 AAATGCTCCCAATCTTC
21183646 AAATGCTCCCAATCTTC
1 AAATGCTCCCAATCTTC
*
21183663 GAATGC
1 AAATGC
21183669 CTCCGAATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
17 21 1.00
ACGTcount: A:0.30, C:0.30, G:0.10, T:0.30
Consensus pattern (17 bp):
AAATGCTCCCAATCTTC
Found at i:21184189 original size:163 final size:164
Alignment explanation
Indices: 21183945--21184248 Score: 459
Period size: 163 Copynumber: 1.9 Consensus size: 164
21183935 AATATAATTA
* * *
21183945 TTAGAGATAAATTAAATGACCAATAATTAAAAATTGATTGGTCAAAAATATGAATATTATCTCTA
1 TTAGAGATAAATTAAATGACCAATAACTAAAAATTGATTAGTCAAAAATATAAATATTATCTCTA
*
21184010 AATTATCTTGATTTATTTAGAGATAAATTGGATGACCAACAACTAA-TTTTTGATTGGT-CAAAA
66 AATTATCTTGATTTATTTAGAGATAAATTGAATGACCAACAACTAATTTTTTGATTGGTCCAAAA
* *
21184073 ATATGAATATTATCTCTAAATTATCTTTATTTTT
131 AAATAAATATTATCTCTAAATTATCTTTATTTTT
** ***
21184107 TTAGAGATAAATTGGATGACCAATAACTAATTTTTTGATTAGTCAAAAATATAAATATTATCTCT
1 TTAGAGATAAATTAAATGACCAATAACTAA-AAATTGATTAGTCAAAAATATAAATATTATCTCT
* * *
21184172 AAATTATTTTGATTTATTTAGAGATAAATTGAATGACCAATAACTAATTTTTTTATTGGTCCAAA
65 AAATTATCTTGATTTATTTAGAGATAAATTGAATGACCAACAACTAATTTTTTGATTGGTCCAAA
21184237 AAAATAAATATT
130 AAAATAAATATT
21184249 TTCTACCAAT
Statistics
Matches: 125, Mismatches: 14, Indels: 3
0.88 0.10 0.02
Matches are distributed among these distances:
162 27 0.22
163 73 0.58
164 11 0.09
165 14 0.11
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.40
Consensus pattern (164 bp):
TTAGAGATAAATTAAATGACCAATAACTAAAAATTGATTAGTCAAAAATATAAATATTATCTCTA
AATTATCTTGATTTATTTAGAGATAAATTGAATGACCAACAACTAATTTTTTGATTGGTCCAAAA
AAATAAATATTATCTCTAAATTATCTTTATTTTT
Found at i:21184273 original size:82 final size:82
Alignment explanation
Indices: 21183945--21184248 Score: 441
Period size: 81 Copynumber: 3.7 Consensus size: 82
21183935 AATATAATTA
** * *** *
21183945 TTAGAGATAAATTAAATGACCAATAATTAA-AAATTGATTGGTCAAAAATATGAATATTATCTCT
1 TTAGAGATAAATTGGATGACCAATAACTAATTTTTTGATTGGTCAAAAATATAAATATTATCTCT
21184009 AAATTATCTTGATTTAT
66 AAATTATCTTGATTTAT
* *
21184026 TTAGAGATAAATTGGATGACCAACAACTAA-TTTTTGATTGGTCAAAAATATGAATATTATCTCT
1 TTAGAGATAAATTGGATGACCAATAACTAATTTTTTGATTGGTCAAAAATATAAATATTATCTCT
* *
21184090 AAATTATCTTTATTTTT
66 AAATTATCTTGATTTAT
*
21184107 TTAGAGATAAATTGGATGACCAATAACTAATTTTTTGATTAGTCAAAAATATAAATATTATCTCT
1 TTAGAGATAAATTGGATGACCAATAACTAATTTTTTGATTGGTCAAAAATATAAATATTATCTCT
*
21184172 AAATTATTTTGATTTAT
66 AAATTATCTTGATTTAT
* * *
21184189 TTAGAGATAAATTGAATGACCAATAACTAATTTTTTTATTGGTCCAAAAAAATAAATATT
1 TTAGAGATAAATTGGATGACCAATAACTAATTTTTTGATTGGT-CAAAAATATAAATATT
21184249 TTCTACCAAT
Statistics
Matches: 202, Mismatches: 19, Indels: 2
0.91 0.09 0.01
Matches are distributed among these distances:
81 101 0.50
82 86 0.43
83 15 0.07
ACGTcount: A:0.41, C:0.08, G:0.10, T:0.40
Consensus pattern (82 bp):
TTAGAGATAAATTGGATGACCAATAACTAATTTTTTGATTGGTCAAAAATATAAATATTATCTCT
AAATTATCTTGATTTAT
Found at i:21184580 original size:28 final size:28
Alignment explanation
Indices: 21184548--21184654 Score: 124
Period size: 28 Copynumber: 3.6 Consensus size: 28
21184538 TATAATCTTG
*
21184548 GAAGATGTATATTGCAATAAAACTATTT
1 GAAGAAGTATATTGCAATAAAACTATTT
**
21184576 GAAGAAGTATATTGCAATAAGGCTATAATTTT
1 GAAGAAGTATATTGCAATAAAAC--T-A-TTT
*
21184608 GAAAGAAGTATATTGCAATAAAACTACTT
1 G-AAGAAGTATATTGCAATAAAACTATTT
*
21184637 AAAGAAGTATATTGCAAT
1 GAAGAAGTATATTGCAAT
21184655 TAGGATTACA
Statistics
Matches: 67, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
28 37 0.55
29 2 0.03
30 2 0.03
31 2 0.03
32 4 0.06
33 20 0.30
ACGTcount: A:0.45, C:0.07, G:0.16, T:0.32
Consensus pattern (28 bp):
GAAGAAGTATATTGCAATAAAACTATTT
Found at i:21184633 original size:61 final size:61
Alignment explanation
Indices: 21184538--21184654 Score: 189
Period size: 61 Copynumber: 1.9 Consensus size: 61
21184528 GTAAGAGAAT
* * * *
21184538 TATAATCTTGGAAGATGTATATTGCAATAAAACTATTTGAAGAAGTATATTGCAATAAGGC
1 TATAATCTTGAAAGAAGTATATTGCAATAAAACTACTTAAAGAAGTATATTGCAATAAGGC
*
21184599 TATAATTTTGAAAGAAGTATATTGCAATAAAACTACTTAAAGAAGTATATTGCAAT
1 TATAATCTTGAAAGAAGTATATTGCAATAAAACTACTTAAAGAAGTATATTGCAAT
21184655 TAGGATTACA
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
61 51 1.00
ACGTcount: A:0.44, C:0.08, G:0.15, T:0.33
Consensus pattern (61 bp):
TATAATCTTGAAAGAAGTATATTGCAATAAAACTACTTAAAGAAGTATATTGCAATAAGGC
Found at i:21185466 original size:40 final size:39
Alignment explanation
Indices: 21185411--21185694 Score: 245
Period size: 40 Copynumber: 7.4 Consensus size: 39
21185401 TAAAGTAGTA
*
21185411 CTCTTTATAATAGCACGCAATTTATTATCCTCGGAGGGTG
1 CTCTTTATAATAGCAC-CAATTTATTATCCTTGGAGGGTG
* *
21185451 CTCTTTATAATAGCA-C---TTATTGATCCGTGGAGGCTG
1 CTCTTTATAATAGCACCAATTTATT-ATCCTTGGAGGGTG
* *
21185487 CTCTTCATGATAGCACACAATTTATTATCCTTGGAGGGTG
1 CTCTTTATAATAGCAC-CAATTTATTATCCTTGGAGGGTG
* * *
21185527 CTTTTTATCATAGCA-C--TTGT-TGATCCTTGG-GAGGTG
1 CTCTTTATAATAGCACCAATT-TATTATCCTTGGAG-GGTG
*
21185563 CTCTTTATACTAGCACACAATTTATTATCCTTGGAGGGTG
1 CTCTTTATAATAGCAC-CAATTTATTATCCTTGGAGGGTG
* * * * *
21185603 CCCTTTGTCATAGCA-C--TTGT-TGATCTTTGG-GAGGTG
1 CTCTTTATAATAGCACCAATT-TATTATCCTTGGAG-GGTG
* *
21185639 CTCTTTATACTAGCACACAATTTATTATCCTTGGAGGATG
1 CTCTTTATAATAGCAC-CAATTTATTATCCTTGGAGGGTG
21185679 CTCTTTATAATAGCAC
1 CTCTTTATAATAGCAC
21185695 TTGTTGATCC
Statistics
Matches: 193, Mismatches: 29, Indels: 44
0.73 0.11 0.17
Matches are distributed among these distances:
35 7 0.04
36 76 0.39
37 2 0.01
38 6 0.03
39 2 0.01
40 93 0.48
41 7 0.04
ACGTcount: A:0.23, C:0.20, G:0.20, T:0.37
Consensus pattern (39 bp):
CTCTTTATAATAGCACCAATTTATTATCCTTGGAGGGTG
Found at i:21185490 original size:36 final size:35
Alignment explanation
Indices: 21185432--21185721 Score: 201
Period size: 36 Copynumber: 7.7 Consensus size: 35
21185422 AGCACGCAAT
*
21185432 TTATT-ATCCTCGGAGGGTGCTCTTTATAATAGCAC
1 TTATTGATCCTTGGA-GGTGCTCTTTATAATAGCAC
* * *
21185467 TTATTGATCCGTGGAGGCTGCTCTTCATGATAGCACAC
1 TTATTGATCCTTGGAGG-TGCTCTTTATAATAG--CAC
* *
21185505 AATTTATT-ATCCTTGGAGGGTGCTTTTTATCATAGCAC
1 ---TTATTGATCCTTGGA-GGTGCTCTTTATAATAGCAC
* *
21185543 TTGTTGATCCTTGGGAGGTGCTCTTTATACTAGCACAC
1 TTATTGATCCTT-GGAGGTGCTCTTTATAATAG--CAC
* * *
21185581 AATTTATT-ATCCTTGGAGGGTGCCCTTTGTCATAGCAC
1 ---TTATTGATCCTTGGA-GGTGCTCTTTATAATAGCAC
* * *
21185619 TTGTTGATCTTTGGGAGGTGCTCTTTATACTAGCACAC
1 TTATTGATCCTT-GGAGGTGCTCTTTATAATAG--CAC
21185657 AATTTATT-ATCCTTGGAGGATGCTCTTTATAATAGCAC
1 ---TTATTGATCCTTGGAGG-TGCTCTTTATAATAGCAC
* *
21185695 TTGTTGATCCTTGGGAGGTGCTTTTTA
1 TTATTGATCCTT-GGAGGTGCTCTTTA
21185722 AAAATGCACA
Statistics
Matches: 201, Mismatches: 28, Indels: 51
0.72 0.10 0.18
Matches are distributed among these distances:
35 19 0.09
36 72 0.36
37 11 0.05
38 18 0.09
39 8 0.04
40 58 0.29
41 15 0.07
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.39
Consensus pattern (35 bp):
TTATTGATCCTTGGAGGTGCTCTTTATAATAGCAC
Found at i:21185540 original size:76 final size:76
Alignment explanation
Indices: 21185411--21185739 Score: 466
Period size: 76 Copynumber: 4.3 Consensus size: 76
21185401 TAAAGTAGTA
* * * *
21185411 CTCTTTATAATAGCACGCAATTTATTATCCTCGGAGGGTGCTCTTTATAATAGCACTTATTGATC
1 CTCTTTATACTAGCACACAATTTATTATCCTTGGAGGGTGCTCTTTATAATAGCACTTGTTGATC
*
21185476 CGT-GGAGGCTG
66 CTTGGGAGG-TG
* * *
21185487 CTCTTCATGA-TAGCACACAATTTATTATCCTTGGAGGGTGCTTTTTATCATAGCACTTGTTGAT
1 CTCTTTAT-ACTAGCACACAATTTATTATCCTTGGAGGGTGCTCTTTATAATAGCACTTGTTGAT
21185551 CCTTGGGAGGTG
65 CCTTGGGAGGTG
* * *
21185563 CTCTTTATACTAGCACACAATTTATTATCCTTGGAGGGTGCCCTTTGTCATAGCACTTGTTGATC
1 CTCTTTATACTAGCACACAATTTATTATCCTTGGAGGGTGCTCTTTATAATAGCACTTGTTGATC
*
21185628 TTTGGGAGGTG
66 CTTGGGAGGTG
*
21185639 CTCTTTATACTAGCACACAATTTATTATCCTTGGAGGATGCTCTTTATAATAGCACTTGTTGATC
1 CTCTTTATACTAGCACACAATTTATTATCCTTGGAGGGTGCTCTTTATAATAGCACTTGTTGATC
21185704 CTTGGGAGGTG
66 CTTGGGAGGTG
* **
21185715 CTTTTTA-AAAATGCACACAATTTAT
1 CTCTTTATACTA-GCACACAATTTAT
21185740 AATCACCATG
Statistics
Matches: 229, Mismatches: 20, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
75 3 0.01
76 220 0.96
77 6 0.03
ACGTcount: A:0.23, C:0.19, G:0.20, T:0.38
Consensus pattern (76 bp):
CTCTTTATACTAGCACACAATTTATTATCCTTGGAGGGTGCTCTTTATAATAGCACTTGTTGATC
CTTGGGAGGTG
Found at i:21186203 original size:66 final size:68
Alignment explanation
Indices: 21186123--21186256 Score: 218
Period size: 66 Copynumber: 2.0 Consensus size: 68
21186113 TATATATATA
*
21186123 TTTGCCTTAACTTTTGCCTAAGTCATCTTGGTAAGGATTTTCAACTTAGCAGG-CTTTTTT-TTT
1 TTTGCCTTAACTTTTGCCTAAGTCATCCTGGTAAGGATTTTCAACTTAGCAGGCCTTTTTTCTTT
21186186 TTG
66 TTG
* *
21186189 TTTGCCTTAACTTTTGCCTAAGTCGTCCTGTTAAGGATTTTCAACTTAGCAGGCCCTTTTTTCTT
1 TTTGCCTTAACTTTTGCCTAAGTCATCCTGGTAAGGATTTTCAACTTAGCAGG-CCTTTTTTCTT
21186254 TTT
65 TTT
21186257 TTGGATGCAG
Statistics
Matches: 62, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
66 50 0.81
68 7 0.11
69 5 0.08
ACGTcount: A:0.17, C:0.19, G:0.16, T:0.48
Consensus pattern (68 bp):
TTTGCCTTAACTTTTGCCTAAGTCATCCTGGTAAGGATTTTCAACTTAGCAGGCCTTTTTTCTTT
TTG
Found at i:21196363 original size:354 final size:355
Alignment explanation
Indices: 21195711--21196410 Score: 1010
Period size: 354 Copynumber: 2.0 Consensus size: 355
21195701 TTATTGAAAT
* * ***
21195711 TGTGTAAAACATGTACCATGGCATCTTAAGGCATGGTTTCACTCTTCATGGTCATGTTTACTTGG
1 TGTGTAAAACATGTACCATGGCATCTTAAGGCATGGTTTCAATCTTCATGGTCACGTTTACTCAA
* * * *
21195776 CTACTTTGAAGTCCAACCAGGCCAAGCCTTTCTTTCATGCTAACAACAAAAGCCTTAAACTGTTG
66 CTACTCTCAAGGCCAACCAAGCCAAGCCTTTCTTTCATGCT-A-AACAAAAGCCTTAAACTGTTG
* *
21195841 ATATTGAAAAATTGTAAGACAAAATTAATTTTTTAGATTTGAATTAAATTATGATTAAGATGTAC
129 ATATTGAAAAATTGTAAGACAAAATTAAATTTTTAGATTTGAACTAAATTATGATTAAGATGTAC
* *
21195906 AAAAATTAAATTAAGACTCAGTTGATACCCGTGCTTTGTAATGAGATTTATAGTGGGTAAAGGTC
194 AAAAATTAAATTAAGACTCAGCTGATACCCGTGCTTTGCAATGAGATTTATAGTGGGTAAAGGTC
* *
21195971 GGCTTTGTGATCATAATATCAAGATCTTTTTTAAGTGTTTGATTAATGAGCATTTTGTAAATTCT
259 GGCTTCGTGATCATAATATCAAGATCTTTTTTAAGTGTTTGATTAATGAGCATTTTATAAATTCT
21196036 ATT-GACATTCTATGTATGGAGGTACCATGGCA
324 ATTAG-CATTCTATGTATGGAGGTACCATGGCA
* * *
21196068 TGTGTAAGACATGTACCGTGGCATCTTGAGGCATGGTTTCAATCTTCATGGTCACGTTTACTCAA
1 TGTGTAAAACATGTACCATGGCATCTTAAGGCATGGTTTCAATCTTCATGGTCACGTTTACTCAA
* * * *
21196133 CTACTCTCAAGGCTAGCCAAGCCAAGCCTTTGTTTCATGCT-AACAAAAGCCTTATAA-TTTTGA
66 CTACTCTCAAGGCCAACCAAGCCAAGCCTTTCTTTCATGCTAAACAAAAGCCTTA-AACTGTTGA
** * * * * * *
21196196 TATTGTTAAATTGTTAGATAGAATTAAATTTTTATATTTTAACTAAATTATGATTAAGATGTATA
130 TATTGAAAAATTGTAAGACAAAATTAAATTTTTAGATTTGAACTAAATTATGATTAAGATGTACA
* *
21196261 AAAATTAAATTAAGACTCAGCTGATACCCGTGCTTTGCAATGAGATTTATGGTGGGTCAAGGTCG
195 AAAATTAAATTAAGACTCAGCTGATACCCGTGCTTTGCAATGAGATTTATAGTGGGTAAAGGTCG
* * * * *
21196326 GCTTCGTGATCATAATATGAAGATCTTTTTTAAGTGTTTGATTGATGTGTATTTTATAAATTTTA
260 GCTTCGTGATCATAATATCAAGATCTTTTTTAAGTGTTTGATTAATGAGCATTTTATAAATTCTA
21196391 TTAGCATTCTATGTATGGAG
325 TTAGCATTCTATGTATGGAG
21196411 ATACTTCTAA
Statistics
Matches: 304, Mismatches: 37, Indels: 7
0.87 0.11 0.02
Matches are distributed among these distances:
354 210 0.69
355 3 0.01
357 91 0.30
ACGTcount: A:0.31, C:0.14, G:0.18, T:0.37
Consensus pattern (355 bp):
TGTGTAAAACATGTACCATGGCATCTTAAGGCATGGTTTCAATCTTCATGGTCACGTTTACTCAA
CTACTCTCAAGGCCAACCAAGCCAAGCCTTTCTTTCATGCTAAACAAAAGCCTTAAACTGTTGAT
ATTGAAAAATTGTAAGACAAAATTAAATTTTTAGATTTGAACTAAATTATGATTAAGATGTACAA
AAATTAAATTAAGACTCAGCTGATACCCGTGCTTTGCAATGAGATTTATAGTGGGTAAAGGTCGG
CTTCGTGATCATAATATCAAGATCTTTTTTAAGTGTTTGATTAATGAGCATTTTATAAATTCTAT
TAGCATTCTATGTATGGAGGTACCATGGCA
Found at i:21197706 original size:175 final size:174
Alignment explanation
Indices: 21197415--21197763 Score: 689
Period size: 175 Copynumber: 2.0 Consensus size: 174
21197405 GAGAGAAATT
21197415 TTGGTTGTATAAATGGATGAATTTCACAATCTAATTTTTGTTTCTATTCTATCTCAATCAAAGAT
1 TTGGTTGTATAAATGGATGAATTTCACAATCTAATTTTTGTTTCTATTCTATCTCAATCAAAGAT
21197480 TCTTCAACAATTAAAAACAGGGTAATTTTCAAGCAAAAACACTTGGCTTATAGATACAAAGGCAT
66 TCTTCAACAATTAAAAACAGGGTAATTTTCAAGCAAAAACACTTGGCTTATAGATACAAAGGCAT
21197545 AGCTGATGGTATCGAAAAGTTCAAAAACATTAGAATATGTTTTC
131 AGCTGATGGTATCGAAAAGTTCAAAAACATTAGAATATGTTTTC
21197589 NTTGGTTGTATAAATGGATGAATTTCACAATCTAATTTTTGTTTCTATTCTATCTCAATCAAAGA
1 -TTGGTTGTATAAATGGATGAATTTCACAATCTAATTTTTGTTTCTATTCTATCTCAATCAAAGA
21197654 TTCTTCAACAATTAAAAACAGGGTAATTTTCAAGCAAAAACACTTGGCTTATAGATACAAAGGCA
65 TTCTTCAACAATTAAAAACAGGGTAATTTTCAAGCAAAAACACTTGGCTTATAGATACAAAGGCA
21197719 TAGCTGATGGTATCGAAAAGTTCAAAAACATTAGAATATGTTTTC
130 TAGCTGATGGTATCGAAAAGTTCAAAAACATTAGAATATGTTTTC
21197764 CTTTTTACTC
Statistics
Matches: 174, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
175 174 1.00
ACGTcount: A:0.37, C:0.14, G:0.14, T:0.34
Consensus pattern (174 bp):
TTGGTTGTATAAATGGATGAATTTCACAATCTAATTTTTGTTTCTATTCTATCTCAATCAAAGAT
TCTTCAACAATTAAAAACAGGGTAATTTTCAAGCAAAAACACTTGGCTTATAGATACAAAGGCAT
AGCTGATGGTATCGAAAAGTTCAAAAACATTAGAATATGTTTTC
Found at i:21214627 original size:101 final size:102
Alignment explanation
Indices: 21214503--21214688 Score: 302
Period size: 101 Copynumber: 1.8 Consensus size: 102
21214493 CATACAAAAT
* * *
21214503 TAACACCGTAAATCAAATGAATGACGTACTCAATACATTCAATAAAATTACCACATTTGACATGT
1 TAACACCGTAAATCAAATAAATGACGTACTCAAAACATTCAATAAAATTACCACACTTGACATGT
* *
21214568 CGACATT-CGTTTTTTGAGATAAGTGACACATTTTTC
66 CAACATTACATTTTTTGAGATAAGTGACACATTTTTC
* *
21214604 TAACACCGTAAATCAGATAAATGACGTACTCAAAACATTCAATAAAATTACCACACTTGATATGT
1 TAACACCGTAAATCAAATAAATGACGTACTCAAAACATTCAATAAAATTACCACACTTGACATGT
21214669 CAACATTACATTTTTTGAGA
66 CAACATTACATTTTTTGAGA
21214689 CACCCGACAT
Statistics
Matches: 77, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
101 66 0.86
102 11 0.14
ACGTcount: A:0.39, C:0.19, G:0.11, T:0.31
Consensus pattern (102 bp):
TAACACCGTAAATCAAATAAATGACGTACTCAAAACATTCAATAAAATTACCACACTTGACATGT
CAACATTACATTTTTTGAGATAAGTGACACATTTTTC
Found at i:21238703 original size:42 final size:42
Alignment explanation
Indices: 21238644--21238729 Score: 172
Period size: 42 Copynumber: 2.0 Consensus size: 42
21238634 ACATAAAGAA
21238644 AGCCAATTCTTCCAAATTTCCCCATGACAGCATCAAGCAAGT
1 AGCCAATTCTTCCAAATTTCCCCATGACAGCATCAAGCAAGT
21238686 AGCCAATTCTTCCAAATTTCCCCATGACAGCATCAAGCAAGT
1 AGCCAATTCTTCCAAATTTCCCCATGACAGCATCAAGCAAGT
21238728 AG
1 AG
21238730 AAGGAAAGTT
Statistics
Matches: 44, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
42 44 1.00
ACGTcount: A:0.34, C:0.30, G:0.13, T:0.23
Consensus pattern (42 bp):
AGCCAATTCTTCCAAATTTCCCCATGACAGCATCAAGCAAGT
Found at i:21257327 original size:21 final size:19
Alignment explanation
Indices: 21257301--21257339 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
21257291 TTTAAAACAG
21257301 AATAACATAAAATTTAACTAA
1 AATAACAT-AAA-TTAACTAA
*
21257322 AATAACGTAAATTAACTA
1 AATAACATAAATTAACTA
21257340 GTCAACATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 3 0.18
21 7 0.41
ACGTcount: A:0.59, C:0.10, G:0.03, T:0.28
Consensus pattern (19 bp):
AATAACATAAATTAACTAA
Found at i:21258491 original size:51 final size:51
Alignment explanation
Indices: 21258426--21258524 Score: 164
Period size: 51 Copynumber: 1.9 Consensus size: 51
21258416 ACTTTACTTA
*
21258426 ATCTTTGCTTCAAGGGTTTTCACA-ACTTAATCTTGATCATGAACACTTGAT
1 ATCTTCGCTTCAAGGGTTTTCA-AGACTTAATCTTGATCATGAACACTTGAT
*
21258477 ATCTTCGCTTCAAGGGTTTTTAAGACTTAATCTTGATCATGAACACTT
1 ATCTTCGCTTCAAGGGTTTTCAAGACTTAATCTTGATCATGAACACTT
21258525 AACTTTGTTT
Statistics
Matches: 45, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
50 1 0.02
51 44 0.98
ACGTcount: A:0.27, C:0.19, G:0.14, T:0.39
Consensus pattern (51 bp):
ATCTTCGCTTCAAGGGTTTTCAAGACTTAATCTTGATCATGAACACTTGAT
Found at i:21258768 original size:18 final size:18
Alignment explanation
Indices: 21258738--21258778 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
21258728 TTGATCTTTG
*
21258738 AAATG-CTCTCAATCTTC
1 AAATGCCTCCCAATCTTC
21258755 AAATGCCTCCCAATCTTC
1 AAATGCCTCCCAATCTTC
*
21258773 GAATGC
1 AAATGC
21258779 TTTCGAATGA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 5 0.24
18 16 0.76
ACGTcount: A:0.29, C:0.32, G:0.10, T:0.29
Consensus pattern (18 bp):
AAATGCCTCCCAATCTTC
Found at i:21259167 original size:81 final size:81
Alignment explanation
Indices: 21259063--21259256 Score: 264
Period size: 82 Copynumber: 2.4 Consensus size: 81
21259053 TATTATAGAT
* * * *
21259063 AAATTAAATGATCAATAATTAAATTTTGATTGGTTAAAAATATGAATATTATCTCTAAATTACCT
1 AAATTGAATGACCAATAATTAAATTTTGATTGGTCAAAAATATGAATATTATCTCTAAATTAACT
*
21259128 TGATTTGTTTTAGAGAA
66 TGATTT-ATTTAGAGAA
* * *
21259145 AAATTGGAT-ACTAATAATTAAATTTTTGATTGGTCAAAAATATGAATATTATCTTTAAATTAAC
1 AAATTGAATGACCAATAATTAAA-TTTTGATTGGTCAAAAATATGAATATTATCTCTAAATTAAC
*
21259209 TTGATTTATTTAGAGAC
65 TTGATTTATTTAGAGAA
* *
21259226 AAATTGAATGACCAATAACTAAGTTTTGATT
1 AAATTGAATGACCAATAATTAAATTTTGATT
21259257 AGTCCACTTT
Statistics
Matches: 97, Mismatches: 13, Indels: 5
0.84 0.11 0.04
Matches are distributed among these distances:
81 35 0.36
82 62 0.64
ACGTcount: A:0.41, C:0.07, G:0.11, T:0.41
Consensus pattern (81 bp):
AAATTGAATGACCAATAATTAAATTTTGATTGGTCAAAAATATGAATATTATCTCTAAATTAACT
TGATTTATTTAGAGAA
Found at i:21263078 original size:515 final size:513
Alignment explanation
Indices: 21262107--21263132 Score: 1761
Period size: 515 Copynumber: 2.0 Consensus size: 513
21262097 GGTCTCGCTA
21262107 CCACGTAATAACATCCAAGAGCATCGCTTCACCGGATTCCCATGTGCCATGGCAATCTCACGATG
1 CCACGTAATAACATCCAAGAGCATCGCTTCACCGGATTCCCATGTGCCATGGCAATCTCACGATG
*
21262172 TTGGCCGACATCGGAGAATCAAACGGTCATAACCGTGAAATCATCTGGTGGCCTAGCCACGCATA
66 TTGGCCGACATCGGAGAATCAAACGGTCATAACCGTGAAATCATCTGGTGGCCTAGCCACACATA
* *
21262237 CATATATCACAAGCCGTGGCCCCAACCACGCCTAACCGCCCGTCAGCGACCCAATGGTTCTCTAG
131 CAAATATCACAAGCCGTGGCCCCAACAACGCCTAACCG-CCGTCAGCGACCCAATGGTTCTCTAG
* * *
21262302 CTAGAGCTCACTCGTGCACGAGGGTCACACTTAACCGATGTGACATCCGGTCAACTCTCGAATTT
195 CTAGAGCACACTCGTGCACGAGAGCCACACTTAACCGATGTGACATCCGGTCAACTCTCGAATTT
*
21262367 CTCGATTTTAAAAAAAAATCATTTTAGAATCGCTTTATGTCCTTGAAATCTCGTCTTAAAATTAT
260 CTCGATTTTAAAAAAAAATCATTTTAGAATCGCTTTATGTCCTTGAAATCTCATCTTAAAATTAT
*
21262432 TTTCAAAGTATTCAACATAAGAATTGATAAAATCTATCATTTTCTCAAAATATATTTATCCATGA
325 TTTCAAAGTATTCAACACAAGAATTGATAAAATCTATCATTTTCTCAAAATATATTTATCCATGA
21262497 ATTTCAAAATAATAATTCGCACGGTGAATAAATAATATAACCATGAATGCATACTGCACAAATAT
390 ATTTCAAAATAATAATTCGCACGGTGAATAAATAATATAACCATGAATGCATACTGCACAAATAT
* *
21262562 AAGGCATAGATTTTGATGTAAAAAGTATAAAGGGCTTGTTTCCCGTTTTTATAAACNCTC
455 AAGGCATAGATTTTGATGTAAAAAGTATAAAGGGCTTGTTTCCCGATTTCATAAAC-CTC
*** * *
21262622 CCACGTAATAACATCTGGGAGCATTGCTTCCATCGGATTCCCATGTGCCATGGCAATCTCACGAT
1 CCACGTAATAACATCCAAGAGCATCGCTT-CACCGGATTCCCATGTGCCATGGCAATCTCACGAT
21262687 GTTGGCCGACATCGGAGAATCAAACGGTCATAACCGTGAAATCATCTGGTGGCCTAGCCACACAT
65 GTTGGCCGACATCGGAGAATCAAACGGTCATAACCGTGAAATCATCTGGTGGCCTAGCCACACAT
* * *
21262752 ACAAATATCACAGGCCGTGGCCCCAACAACGCCTAACCG-CGTCAGTGACTCGAA-GGTTCTCTA
130 ACAAATATCACAAGCCGTGGCCCCAACAACGCCTAACCGCCGTCAGCGAC-CCAATGGTTCTCTA
*
21262815 GCTAGAGCACACTTGTGCACGAGAGCCACACTTAACCGATGTGACATCCGGTCAACTCTCGAATT
194 GCTAGAGCACACTCGTGCACGAGAGCCACACTTAACCGATGTGACATCCGGTCAACTCTCGAATT
21262880 TCTCGATTTTAAAAAAAAATCATTTTAGAAATCGCTTTATGTCCTTGAAATCTCATCTTAAAATT
259 TCTCGATTTTAAAAAAAAATCATTTTAG-AATCGCTTTATGTCCTTGAAATCTCATCTTAAAATT
* * *
21262945 ATTTTCAAAGTATTCAACACAAG-GTATGATAAAATCTATCATTTTCTTAAAATATATTTATGCA
323 ATTTTCAAAGTATTCAACACAAGAAT-TGATAAAATCTATCATTTTCTCAAAATATATTTATCCA
* *
21263009 TGAATTTTAAAATAATAATTCGCATGGTGAATAAATAATATAACCATGAATGCATACTGCACAAA
387 TGAATTTCAAAATAATAATTCGCACGGTGAATAAATAATATAACCATGAATGCATACTGCACAAA
21263074 TATAAGGCATAGATTTTGATGTAAAAAGTATAAAGGGCTTGTTTCCCGATTTCATAAAC
452 TATAAGGCATAGATTTTGATGTAAAAAGTATAAAGGGCTTGTTTCCCGATTTCATAAAC
21263133 ACTTTACATA
Statistics
Matches: 483, Mismatches: 24, Indels: 8
0.94 0.05 0.02
Matches are distributed among these distances:
514 108 0.22
515 241 0.50
516 134 0.28
ACGTcount: A:0.33, C:0.22, G:0.16, T:0.28
Consensus pattern (513 bp):
CCACGTAATAACATCCAAGAGCATCGCTTCACCGGATTCCCATGTGCCATGGCAATCTCACGATG
TTGGCCGACATCGGAGAATCAAACGGTCATAACCGTGAAATCATCTGGTGGCCTAGCCACACATA
CAAATATCACAAGCCGTGGCCCCAACAACGCCTAACCGCCGTCAGCGACCCAATGGTTCTCTAGC
TAGAGCACACTCGTGCACGAGAGCCACACTTAACCGATGTGACATCCGGTCAACTCTCGAATTTC
TCGATTTTAAAAAAAAATCATTTTAGAATCGCTTTATGTCCTTGAAATCTCATCTTAAAATTATT
TTCAAAGTATTCAACACAAGAATTGATAAAATCTATCATTTTCTCAAAATATATTTATCCATGAA
TTTCAAAATAATAATTCGCACGGTGAATAAATAATATAACCATGAATGCATACTGCACAAATATA
AGGCATAGATTTTGATGTAAAAAGTATAAAGGGCTTGTTTCCCGATTTCATAAACCTC
Found at i:21273616 original size:4 final size:4
Alignment explanation
Indices: 21273601--21273647 Score: 53
Period size: 4 Copynumber: 12.2 Consensus size: 4
21273591 ATGCCATACA
* * *
21273601 TATG TATA TATG TATG GATG TATG TATG TATA TATG TA-- TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
21273647 T
1 T
21273648 GTGTGTGTTG
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
2 2 0.06
4 33 0.94
ACGTcount: A:0.30, C:0.00, G:0.21, T:0.49
Consensus pattern (4 bp):
TATG
Found at i:21274448 original size:14 final size:15
Alignment explanation
Indices: 21274431--21274464 Score: 52
Period size: 14 Copynumber: 2.3 Consensus size: 15
21274421 TTTTCTTTTA
21274431 ATTTATATTTATT-T
1 ATTTATATTTATTCT
*
21274445 ATTTATTTTTATTCT
1 ATTTATATTTATTCT
21274460 ATTTA
1 ATTTA
21274465 CTCATATGTT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
14 12 0.67
15 6 0.33
ACGTcount: A:0.26, C:0.03, G:0.00, T:0.71
Consensus pattern (15 bp):
ATTTATATTTATTCT
Found at i:21278137 original size:42 final size:42
Alignment explanation
Indices: 21278073--21278152 Score: 124
Period size: 42 Copynumber: 1.9 Consensus size: 42
21278063 TTTTACAAAG
* *
21278073 TACTAAAATCTTATAGTAAATCAATCTTATTTAAGTAACTGA
1 TACTAAAATCTTATAATAAATCAATATTATTTAAGTAACTGA
* *
21278115 TACTAAAATTTTATAATGAATCAATATTATTTAAGTAA
1 TACTAAAATCTTATAATAAATCAATATTATTTAAGTAA
21278153 TTCGAAAATT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.45, C:0.09, G:0.06, T:0.40
Consensus pattern (42 bp):
TACTAAAATCTTATAATAAATCAATATTATTTAAGTAACTGA
Found at i:21278192 original size:22 final size:21
Alignment explanation
Indices: 21278167--21278219 Score: 52
Period size: 22 Copynumber: 2.4 Consensus size: 21
21278157 AAAATTGAAG
21278167 AAAAACTAACTAAAAACAACTA
1 AAAAACTAACTAAAAA-AACTA
* * *
21278189 AAAATCAACACTAAATAAACTA
1 AAAAACTA-ACTAAAAAAACTA
*
21278211 ATAAACTAA
1 AAAAACTAA
21278220 AAAACTAACA
Statistics
Matches: 24, Mismatches: 6, Indels: 3
0.73 0.18 0.09
Matches are distributed among these distances:
21 1 0.04
22 16 0.67
23 7 0.29
ACGTcount: A:0.66, C:0.17, G:0.00, T:0.17
Consensus pattern (21 bp):
AAAAACTAACTAAAAAAACTA
Found at i:21278215 original size:8 final size:8
Alignment explanation
Indices: 21278202--21278235 Score: 50
Period size: 8 Copynumber: 4.2 Consensus size: 8
21278192 ATCAACACTA
21278202 AATAAACT
1 AATAAACT
21278210 AATAAACT
1 AATAAACT
*
21278218 AAAAAACT
1 AATAAACT
*
21278226 AACAAACT
1 AATAAACT
21278234 AA
1 AA
21278236 ATAGGTTGAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 24 1.00
ACGTcount: A:0.68, C:0.15, G:0.00, T:0.18
Consensus pattern (8 bp):
AATAAACT
Found at i:21278226 original size:16 final size:17
Alignment explanation
Indices: 21278198--21278238 Score: 66
Period size: 16 Copynumber: 2.5 Consensus size: 17
21278188 AAAAATCAAC
*
21278198 ACTAAATAAACTAATAA
1 ACTAAATAAACTAACAA
21278215 ACTAAA-AAACTAACAA
1 ACTAAATAAACTAACAA
21278231 ACTAAATA
1 ACTAAATA
21278239 GGTTGAGAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
16 15 0.68
17 7 0.32
ACGTcount: A:0.66, C:0.15, G:0.00, T:0.20
Consensus pattern (17 bp):
ACTAAATAAACTAACAA
Found at i:21279533 original size:26 final size:28
Alignment explanation
Indices: 21279504--21279568 Score: 73
Period size: 26 Copynumber: 2.3 Consensus size: 28
21279494 AAGTGATCTA
*
21279504 AAAATTGAAGAAAA-ACT-AATTAA-AAC
1 AAAATT-AAAAAAACACTAAATTAACAAC
21279530 AAAATTAAAAAAACACTAAATTAATCAAC
1 AAAATTAAAAAAACACTAAATTAA-CAAC
21279559 AAAAATTAAA
1 -AAAATTAAA
21279569 TATATTGAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 6
0.82 0.03 0.15
Matches are distributed among these distances:
25 6 0.18
26 9 0.27
27 6 0.18
29 3 0.09
30 9 0.27
ACGTcount: A:0.68, C:0.09, G:0.03, T:0.20
Consensus pattern (28 bp):
AAAATTAAAAAAACACTAAATTAACAAC
Found at i:21280972 original size:21 final size:19
Alignment explanation
Indices: 21280946--21280984 Score: 51
Period size: 19 Copynumber: 1.9 Consensus size: 19
21280936 TTTAAAACAG
21280946 AATAACATAAAATTTAACTAA
1 AATAAC-TAAAA-TTAACTAA
*
21280967 AATAACTTAAATTAACTA
1 AATAACTAAAATTAACTA
21280985 GTCAACATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
19 7 0.41
20 4 0.24
21 6 0.35
ACGTcount: A:0.59, C:0.10, G:0.00, T:0.31
Consensus pattern (19 bp):
AATAACTAAAATTAACTAA
Found at i:21282139 original size:51 final size:49
Alignment explanation
Indices: 21282044--21282173 Score: 172
Period size: 51 Copynumber: 2.6 Consensus size: 49
21282034 CACGAACTCG
* *
21282044 GACTTAATCTTGATCACGAACTTCACTTAATCTTTGCTTCAAGGGTTTTCACA
1 GACTTAATCTTGATCATGAA---CACTTAATCTTCGCTTCAAGGGTTTTCA-A
*
21282097 -ACTTAATCTTGATCATGAACACTTGATATCTTCGCTTCAAGGGTTTTTAA
1 GACTTAATCTTGATCATGAACACTT-A-ATCTTCGCTTCAAGGGTTTTCAA
21282147 GACTTAATCTTGATCATGAACACTTAA
1 GACTTAATCTTGATCATGAACACTTAA
21282174 CTTTGTTTGA
Statistics
Matches: 71, Mismatches: 3, Indels: 10
0.85 0.04 0.12
Matches are distributed among these distances:
49 6 0.08
50 3 0.04
51 44 0.62
52 18 0.25
ACGTcount: A:0.29, C:0.20, G:0.13, T:0.38
Consensus pattern (49 bp):
GACTTAATCTTGATCATGAACACTTAATCTTCGCTTCAAGGGTTTTCAA
Found at i:21282320 original size:29 final size:29
Alignment explanation
Indices: 21282288--21282350 Score: 99
Period size: 29 Copynumber: 2.2 Consensus size: 29
21282278 TTATGACTTA
21282288 ATCTTGATCACGAACTTCACTGCCGCTTG
1 ATCTTGATCACGAACTTCACTGCCGCTTG
***
21282317 ATCTTGATCACGAACTTTGTTGCCGCTTG
1 ATCTTGATCACGAACTTCACTGCCGCTTG
21282346 ATCTT
1 ATCTT
21282351 CACTTCATAA
Statistics
Matches: 31, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
29 31 1.00
ACGTcount: A:0.19, C:0.27, G:0.17, T:0.37
Consensus pattern (29 bp):
ATCTTGATCACGAACTTCACTGCCGCTTG
Found at i:21282407 original size:17 final size:18
Alignment explanation
Indices: 21282385--21282419 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
21282375 TTGATCTTTG
*
21282385 AAATG-CTCTCAATCTTC
1 AAATGCCTCCCAATCTTC
21282402 AAATGCCTCCCAATCTTC
1 AAATGCCTCCCAATCTTC
21282420 GAATTCTTTC
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.29, C:0.34, G:0.06, T:0.31
Consensus pattern (18 bp):
AAATGCCTCCCAATCTTC
Found at i:21282835 original size:83 final size:81
Alignment explanation
Indices: 21282723--21282904 Score: 247
Period size: 83 Copynumber: 2.2 Consensus size: 81
21282713 TTAAATGATC
* *
21282723 AATAATTAAATTTTGATTGGTAAAAAATATGAATATTACCTCTAAATTACCTTGATTTGTTTTAG
1 AATAATTAAATTTTGATTGGTAAAAAATATGAATATTACCTCTAAATTAACTTGATTT-ATTTAG
21282788 AGAAAAATTGGATAACT
65 AGAAAAATTGGATAACT
* * *
21282805 AATAATTAAAATTTTGATTGGTCAAAAATATGAATATTATCTTTAAATTAACTTGATTTATTTAG
1 AATAATT-AAATTTTGATTGGTAAAAAATATGAATATTACCTCTAAATTAACTTGATTTATTTAG
* * * *
21282870 AGACAAATTGAATGACC
65 AGAAAAATTGGATAACT
* *
21282887 AATAACTAAGTTTTGATT
1 AATAATTAAATTTTGATT
21282905 AGTCCACTTT
Statistics
Matches: 88, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
81 10 0.11
82 31 0.35
83 47 0.53
ACGTcount: A:0.42, C:0.07, G:0.12, T:0.40
Consensus pattern (81 bp):
AATAATTAAATTTTGATTGGTAAAAAATATGAATATTACCTCTAAATTAACTTGATTTATTTAGA
GAAAAATTGGATAACT
Found at i:21286434 original size:2 final size:2
Alignment explanation
Indices: 21286417--21286461 Score: 74
Period size: 2 Copynumber: 22.5 Consensus size: 2
21286407 ACTAACTTAC
21286417 TA TA TA T- TA TA CTA 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
21286459 TA T
1 TA T
21286462 TCAAACCAAT
Statistics
Matches: 41, Mismatches: 0, Indels: 4
0.91 0.00 0.09
Matches are distributed among these distances:
1 1 0.02
2 38 0.93
3 2 0.05
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:21302065 original size:21 final size:21
Alignment explanation
Indices: 21302039--21302079 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
21302029 TTCCACCGAA
21302039 TGAGGCA-AACATCGATCTCTC
1 TGAGGCACAACAT-GATCTCTC
*
21302060 TGAGGCACAAGATGATCTCT
1 TGAGGCACAACATGATCTCT
21302080 TCATGGCCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
21 14 0.78
22 4 0.22
ACGTcount: A:0.29, C:0.24, G:0.22, T:0.24
Consensus pattern (21 bp):
TGAGGCACAACATGATCTCTC
Found at i:21304292 original size:159 final size:156
Alignment explanation
Indices: 21303893--21304325 Score: 394
Period size: 156 Copynumber: 2.7 Consensus size: 156
21303883 CGTCTGCTTG
* * *
21303893 ATTTTTTGTAACTATTTCCTTCCGAGACAA-T-GAGAACTTTAATAAATGACCTA-TGATTGAGA
1 ATTTTTTGTAACTGTTTCCTTCTGAGA-AATTGGAG-AC--AAATAAATGACCTACT-ATTGAGA
* * *
21303955 CAAATTTAGAGAAAATGAAATTCCTTTTAATATAACAGTAAGTTATCAAAGTTCTACAATTAATT
61 CAAATTTCGAGAAAATGAAATTCCTTTTAATATAACAATAAGTTAACAAAGTTCTACAATTAATT
* * * **
21304020 GTCATATAAGACTAATTACTCGGTCTGGATG
126 GTCATACAAAACTAATTACTCAGTCTGGAAC
* ** *
21304051 ATTTTTTGTAATTGTTTCCTTCTGAGAAATTGGAGACAAATAAAACACCTACTATTAAGACAAA-
1 ATTTTTTGTAACTGTTTCCTTCTGAGAAATTGGAGACAAATAAATGACCTACTATTGAGACAAAT
* * * * * * * *
21304115 TTCTGAGAAAATGGAATTCTTTTTAGTATTACAATAAGTTAAGAGAGTTCTTCCATTAATTG-CA
66 TTC-GAGAAAATGAAATTCCTTTTAATATAACAATAAGTTAACAAAGTTCTACAATTAATTGTC-
* *
21304179 ATACAAAACTAATTAACT-AGTTTGTAAC
129 ATACAAAACTAATT-ACTCAGTCTGGAAC
* * ** *
21304207 ATTTTTTTGTAACTGTTTCCTTTTGAGAGAA-TGGGGATTGGAATAAGTGACCTACTATTGAGAC
1 A-TTTTTTGTAACTGTTTCCTTCTGAGA-AATTGGAGA--CAAATAAATGACCTACTATTGAGAC
* * * **
21304271 AAATTTCGAGAAAAAGAAATTCCTTTTAATATAAAAATAAATTTTCAAAGTTCTA
62 AAATTTCGAGAAAATGAAATTCCTTTTAATATAACAATAAGTTAACAAAGTTCTA
21304326 ACCTTGATTG
Statistics
Matches: 218, Mismatches: 46, Indels: 21
0.76 0.16 0.07
Matches are distributed among these distances:
155 3 0.01
156 87 0.40
157 35 0.16
158 29 0.13
159 61 0.28
160 3 0.01
ACGTcount: A:0.38, C:0.12, G:0.14, T:0.36
Consensus pattern (156 bp):
ATTTTTTGTAACTGTTTCCTTCTGAGAAATTGGAGACAAATAAATGACCTACTATTGAGACAAAT
TTCGAGAAAATGAAATTCCTTTTAATATAACAATAAGTTAACAAAGTTCTACAATTAATTGTCAT
ACAAAACTAATTACTCAGTCTGGAAC
Found at i:21304435 original size:8 final size:8
Alignment explanation
Indices: 21304424--21304468 Score: 58
Period size: 8 Copynumber: 5.9 Consensus size: 8
21304414 TATATACATG
21304424 TATGTATA
1 TATGTATA
21304432 TATGTATA
1 TATGTATA
* *
21304440 GATGTATG
1 TATGTATA
21304448 TATGTATA
1 TATGTATA
21304456 TA--TATA
1 TATGTATA
21304462 TATGTAT
1 TATGTAT
21304469 GTGTGTGTGT
Statistics
Matches: 31, Mismatches: 4, Indels: 4
0.79 0.10 0.10
Matches are distributed among these distances:
6 6 0.19
8 25 0.81
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.49
Consensus pattern (8 bp):
TATGTATA
Found at i:21304436 original size:12 final size:12
Alignment explanation
Indices: 21304416--21304458 Score: 52
Period size: 12 Copynumber: 3.6 Consensus size: 12
21304406 GCCATACATA
*
21304416 TATACATGTATG
1 TATATATGTATG
21304428 TATATATGTATAG
1 TATATATGTAT-G
*
21304441 -ATGTATGTATG
1 TATATATGTATG
21304452 TATATAT
1 TATATAT
21304459 ATATATGTAT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
11 1 0.04
12 24 0.92
13 1 0.04
ACGTcount: A:0.35, C:0.02, G:0.16, T:0.47
Consensus pattern (12 bp):
TATATATGTATG
Found at i:21304444 original size:16 final size:14
Alignment explanation
Indices: 21304424--21304468 Score: 54
Period size: 14 Copynumber: 3.1 Consensus size: 14
21304414 TATATACATG
21304424 TATGTATATATGTA
1 TATGTATATATGTA
*
21304438 TAGATGTATGTATGTA
1 T--ATGTATATATGTA
*
21304454 TATATATATATGTA
1 TATGTATATATGTA
21304468 T
1 T
21304469 GTGTGTGTGT
Statistics
Matches: 26, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
14 13 0.50
16 13 0.50
ACGTcount: A:0.36, C:0.00, G:0.16, T:0.49
Consensus pattern (14 bp):
TATGTATATATGTA
Found at i:21305596 original size:2 final size:2
Alignment explanation
Indices: 21305589--21305613 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
21305579 TTATGTCAAT
21305589 TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA T
21305614 GTGTGTGTAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:21305651 original size:2 final size:2
Alignment explanation
Indices: 21305644--21305680 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
21305634 ATAAGTACCT
21305644 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
21305681 GAGTTTTTTG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:21306929 original size:18 final size:18
Alignment explanation
Indices: 21306892--21306930 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
21306882 ACACGATTAA
*
21306892 TAACACGTTTAGCACTAT
1 TAACACGTTTAGCACGAT
21306910 TAACACGTTT-GACACGAT
1 TAACACGTTTAG-CACGAT
21306928 TAA
1 TAA
21306931 ATAAAAATAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 1 0.05
18 18 0.95
ACGTcount: A:0.36, C:0.21, G:0.13, T:0.31
Consensus pattern (18 bp):
TAACACGTTTAGCACGAT
Found at i:21311539 original size:12 final size:12
Alignment explanation
Indices: 21311524--21311560 Score: 56
Period size: 12 Copynumber: 3.1 Consensus size: 12
21311514 CATATGTACG
21311524 TGTATATATATA
1 TGTATATATATA
* *
21311536 TGTATAGATGTA
1 TGTATATATATA
21311548 TGTATATATATA
1 TGTATATATATA
21311560 T
1 T
21311561 ATATGTAAAT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
12 21 1.00
ACGTcount: A:0.38, C:0.00, G:0.14, T:0.49
Consensus pattern (12 bp):
TGTATATATATA
Found at i:21316974 original size:18 final size:18
Alignment explanation
Indices: 21316947--21316983 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
21316937 GCATTAACTC
*
21316947 CAACATCAAGAACAACCT
1 CAACAGCAAGAACAACCT
*
21316965 CAACAGCAAGAATAACCT
1 CAACAGCAAGAACAACCT
21316983 C
1 C
21316984 GGTATCAGGA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.49, C:0.32, G:0.08, T:0.11
Consensus pattern (18 bp):
CAACAGCAAGAACAACCT
Found at i:21319420 original size:24 final size:23
Alignment explanation
Indices: 21319379--21319439 Score: 63
Period size: 24 Copynumber: 2.7 Consensus size: 23
21319369 TATTATTTTT
21319379 AAAA-ATATATATAAAATAAAAA
1 AAAATATATATATAAAATAAAAA
** *
21319401 AAAATTATATATATGCAATATAAA
1 AAAA-TATATATATAAAATAAAAA
*
21319425 AATATATATA-ATAAA
1 AAAATATATATATAAA
21319440 TAAGTAAAAC
Statistics
Matches: 31, Mismatches: 6, Indels: 4
0.76 0.15 0.10
Matches are distributed among these distances:
22 7 0.23
23 6 0.19
24 18 0.58
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.30
Consensus pattern (23 bp):
AAAATATATATATAAAATAAAAA
Found at i:21320512 original size:49 final size:45
Alignment explanation
Indices: 21320383--21320529 Score: 195
Period size: 45 Copynumber: 3.2 Consensus size: 45
21320373 CAGACAAATT
* * * *
21320383 AAATGTAAACTTACATGTGGATAACATTGAAAGATATTATCCATG
1 AAATGAAAACTCATATGTGGCTAACATTGAAAGATATTATCCATG
*
21320428 AAATCAAAACTCATATGTGGCTAACATTGAAAGATATTATCCATG
1 AAATGAAAACTCATATGTGGCTAACATTGAAAGATATTATCCATG
* *
21320473 AAATGAAAACTTAATTATATGTGGCTAACATTGAAAGATATTATTCATG
1 AAATGAAAAC----TCATATGTGGCTAACATTGAAAGATATTATCCATG
21320522 AAATGAAA
1 AAATGAAA
21320530 GCAAAATGAG
Statistics
Matches: 90, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
45 49 0.54
49 41 0.46
ACGTcount: A:0.44, C:0.11, G:0.14, T:0.31
Consensus pattern (45 bp):
AAATGAAAACTCATATGTGGCTAACATTGAAAGATATTATCCATG
Found at i:21322109 original size:10 final size:10
Alignment explanation
Indices: 21322091--21322138 Score: 51
Period size: 10 Copynumber: 4.8 Consensus size: 10
21322081 TTGATTGCAA
* *
21322091 ATATTTATAC
1 ATATATATAT
21322101 ATATATATAT
1 ATATATATAT
*
21322111 ATATGTATAT
1 ATATATATAT
* *
21322121 ATAGATATGT
1 ATATATATAT
21322131 ATATATAT
1 ATATATAT
21322139 CTAAAAAAAT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
10 31 1.00
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (10 bp):
ATATATATAT
Found at i:21322110 original size:4 final size:4
Alignment explanation
Indices: 21322091--21322138 Score: 51
Period size: 4 Copynumber: 12.0 Consensus size: 4
21322081 TTGATTGCAA
* * * * *
21322091 ATAT TTAT ACAT ATAT ATAT ATAT GTAT ATAT AGAT ATGT ATAT ATAT
1 ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT ATAT
21322139 CTAAAAAAAT
Statistics
Matches: 34, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.44, C:0.02, G:0.06, T:0.48
Consensus pattern (4 bp):
ATAT
Found at i:21322113 original size:14 final size:14
Alignment explanation
Indices: 21322102--21322138 Score: 65
Period size: 14 Copynumber: 2.6 Consensus size: 14
21322092 TATTTATACA
21322102 TATATATATATATG
1 TATATATATATATG
*
21322116 TATATATAGATATG
1 TATATATATATATG
21322130 TATATATAT
1 TATATATAT
21322139 CTAAAAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.43, C:0.00, G:0.08, T:0.49
Consensus pattern (14 bp):
TATATATATATATG
Found at i:21322649 original size:27 final size:26
Alignment explanation
Indices: 21322602--21322673 Score: 81
Period size: 27 Copynumber: 2.7 Consensus size: 26
21322592 AAACACCTCA
*
21322602 AACATAACATGTAAAAAATTTTTATC
1 AACATAACGTGTAAAAAATTTTTATC
* * *
21322628 AACATAACGTGTAACAATATTTTTTTG
1 AACATAACGTGTAA-AAAATTTTTATC
*
21322655 AACATGACGTGTAATAAAA
1 AACATAACGTGTAA-AAAA
21322674 ACATTTTTTT
Statistics
Matches: 38, Mismatches: 7, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
26 13 0.34
27 25 0.66
ACGTcount: A:0.46, C:0.11, G:0.10, T:0.33
Consensus pattern (26 bp):
AACATAACGTGTAAAAAATTTTTATC
Found at i:21323271 original size:20 final size:21
Alignment explanation
Indices: 21323232--21323271 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 21
21323222 AAAAGCAAAT
*
21323232 TAAGAAAACAAATACCAAAAA
1 TAAGAAAACAAATACAAAAAA
*
21323253 TAAG-AAACAAATAGAAAAA
1 TAAGAAAACAAATACAAAAA
21323272 TGATGAATGA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 13 0.76
21 4 0.24
ACGTcount: A:0.72, C:0.10, G:0.07, T:0.10
Consensus pattern (21 bp):
TAAGAAAACAAATACAAAAAA
Found at i:21330185 original size:17 final size:17
Alignment explanation
Indices: 21330163--21330196 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
21330153 TGTGGTTATC
21330163 AAGTTTACTTGAAGGAT
1 AAGTTTACTTGAAGGAT
* *
21330180 AAGTTTATTTGATGGAT
1 AAGTTTACTTGAAGGAT
21330197 TAGGCAAGGC
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.32, C:0.03, G:0.24, T:0.41
Consensus pattern (17 bp):
AAGTTTACTTGAAGGAT
Found at i:21331157 original size:45 final size:45
Alignment explanation
Indices: 21331087--21331186 Score: 148
Period size: 45 Copynumber: 2.2 Consensus size: 45
21331077 AATTAAGTGT
* *
21331087 AAACTTATATGCGGCTAGCATTGAAAGATAT-TATCCATGAAATCA
1 AAACTTATATGCGGCTAACAGTGAAAGAT-TCTATCCATGAAATCA
* *
21331132 AAACTTATATGTGGCTAACAGTGAAAGATTCTATCCATGAAATGA
1 AAACTTATATGCGGCTAACAGTGAAAGATTCTATCCATGAAATCA
21331177 AAACTTATAT
1 AAACTTATAT
21331187 ATATGTGAAT
Statistics
Matches: 50, Mismatches: 4, Indels: 2
0.89 0.07 0.04
Matches are distributed among these distances:
44 1 0.02
45 49 0.98
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.30
Consensus pattern (45 bp):
AAACTTATATGCGGCTAACAGTGAAAGATTCTATCCATGAAATCA
Found at i:21333657 original size:26 final size:27
Alignment explanation
Indices: 21333605--21333754 Score: 116
Period size: 27 Copynumber: 5.7 Consensus size: 27
21333595 GACGTATAAC
* * * *
21333605 AATAATATTTTTTT-AATATGACTTGT
1 AATAATTTTTTTTTCAACAAGACATGT
21333631 AATAATTTTTTTTT-AACAAGACATGT
1 AATAATTTTTTTTTCAACAAGACATGT
* * *
21333657 -A-AA-CTTTTTTTCAACAGGACAAGT
1 AATAATTTTTTTTTCAACAAGACATGT
* *
21333681 AACAATTTTTTTTTTCAACAAGGA-GTGT
1 AATAA-TTTTTTTTTCAACAA-GACATGT
* * *
21333709 AACAATTTTTTTTTCAACAATG-CGTAT
1 AATAATTTTTTTTTCAACAA-GACATGT
21333736 AATAATTTTTTTTTCAACA
1 AATAATTTTTTTTTCAACA
21333755 TAATGTGTAA
Statistics
Matches: 103, Mismatches: 14, Indels: 13
0.79 0.11 0.10
Matches are distributed among these distances:
23 7 0.07
24 12 0.12
25 2 0.02
26 24 0.23
27 37 0.36
28 19 0.18
29 2 0.02
ACGTcount: A:0.35, C:0.11, G:0.09, T:0.45
Consensus pattern (27 bp):
AATAATTTTTTTTTCAACAAGACATGT
Found at i:21333664 original size:24 final size:25
Alignment explanation
Indices: 21333637--21333693 Score: 71
Period size: 24 Copynumber: 2.3 Consensus size: 25
21333627 TTGTAATAAT
* *
21333637 TTTTTTTTAACAAGACATGTAA-AC
1 TTTTTTTTAACAAGACAAGTAACAA
* *
21333661 TTTTTTTCAACAGGACAAGTAACAA
1 TTTTTTTTAACAAGACAAGTAACAA
21333686 TTTTTTTT
1 TTTTTTTT
21333694 TTCAACAAGG
Statistics
Matches: 27, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 19 0.70
25 8 0.30
ACGTcount: A:0.33, C:0.12, G:0.09, T:0.46
Consensus pattern (25 bp):
TTTTTTTTAACAAGACAAGTAACAA
Found at i:21333693 original size:28 final size:26
Alignment explanation
Indices: 21333661--21333727 Score: 89
Period size: 28 Copynumber: 2.5 Consensus size: 26
21333651 ACATGTAAAC
21333661 TTTTTTTCAACAGGACAAGTAACAATTT
1 TTTTTTTCAACAGGA-AAGTAACAA-TT
**
21333689 TTTTTTTCAACAAGGAGTGTAACAATT
1 TTTTTTTCAAC-AGGAAAGTAACAATT
21333716 TTTTTTTCAACA
1 TTTTTTTCAACA
21333728 ATGCGTATAA
Statistics
Matches: 36, Mismatches: 2, Indels: 4
0.86 0.05 0.10
Matches are distributed among these distances:
26 1 0.03
27 13 0.36
28 18 0.50
29 4 0.11
ACGTcount: A:0.33, C:0.13, G:0.10, T:0.43
Consensus pattern (26 bp):
TTTTTTTCAACAGGAAAGTAACAATT
Found at i:21336673 original size:23 final size:23
Alignment explanation
Indices: 21336643--21336688 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
21336633 GGGTCTCGTG
21336643 TGGGCGGCCATATGGCTTCTGCA
1 TGGGCGGCCATATGGCTTCTGCA
21336666 TGGGCGGCCATATGGCTTCTGCA
1 TGGGCGGCCATATGGCTTCTGCA
21336689 GGACTATGGA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.13, C:0.26, G:0.35, T:0.26
Consensus pattern (23 bp):
TGGGCGGCCATATGGCTTCTGCA
Found at i:21339553 original size:104 final size:104
Alignment explanation
Indices: 21339431--21339686 Score: 320
Period size: 104 Copynumber: 2.5 Consensus size: 104
21339421 AGCCGGCCCC
*
21339431 CAAAGTTTGGGTTTTGTTGCCGCCGGTTAGAGACGGAAAGTTTGGGTTTGGCACCGCCAATCAGA
1 CAAAGTTTGGGTTTTGTTGCCGCCGGTTAGAGACGGAAAGTTTGGGTTTGGCACCGCCAATCAAA
*
21339496 GAATGTTAAAG-CTTGGGTTTAGTGCCGCCAGTTAGAGGA
66 GAATGTTAAAGTC-TGGGTTTAGTGCCGCCAGTTAGAAGA
* * * * * * * * * **
21339535 CAAAGTTTAGGTTTTGTTGCCACTGGTTAGAAAGGGAAAGCTTGGATTTGGCGCCGTCGGTCAAA
1 CAAAGTTTGGGTTTTGTTGCCGCCGGTTAGAGACGGAAAGTTTGGGTTTGGCACCGCCAATCAAA
* *
21339600 GAGTGTTAAAGTCTGGGTTTAGTGCCGCCGGTTAGAAGA
66 GAATGTTAAAGTCTGGGTTTAGTGCCGCCAGTTAGAAGA
* *
21339639 CAAAGTTTGGGTTTTGTTGTCGTCGGTTAGAGGAC--AAAGTTTGGGTTT
1 CAAAGTTTGGGTTTTGTTGCCGCCGGTTAGA-GACGGAAAGTTTGGGTTT
21339687 TGTTGCCGCT
Statistics
Matches: 126, Mismatches: 24, Indels: 5
0.81 0.15 0.03
Matches are distributed among these distances:
103 11 0.09
104 113 0.90
105 2 0.02
ACGTcount: A:0.23, C:0.14, G:0.33, T:0.30
Consensus pattern (104 bp):
CAAAGTTTGGGTTTTGTTGCCGCCGGTTAGAGACGGAAAGTTTGGGTTTGGCACCGCCAATCAAA
GAATGTTAAAGTCTGGGTTTAGTGCCGCCAGTTAGAAGA
Found at i:21339675 original size:34 final size:33
Alignment explanation
Indices: 21339607--21339729 Score: 133
Period size: 34 Copynumber: 3.7 Consensus size: 33
21339597 AAAGAGTGTT
* * *
21339607 AAAGTCTGGGTTTAG-TGCCGCCGGTTAGAAGAC
1 AAAGTTTGGGTTTTGTTGCCG-CGGTTAGAGGAC
*
21339640 AAAGTTTGGGTTTTGTTGTCGTCGGTTAGAGGAC
1 AAAGTTTGGGTTTTGTTGCCG-CGGTTAGAGGAC
**
21339674 AAAGTTTGGGTTTTGTTGCCGCTGGTTAGAGAGGG
1 AAAGTTTGGGTTTTGTTGCCGC-GGTTAGAG-GAC
*
21339709 AAAGTTTGGG-TTTGGTGCCGC
1 AAAGTTTGGGTTTTGTTGCCGC
21339730 AGGTCAAAGG
Statistics
Matches: 78, Mismatches: 9, Indels: 5
0.85 0.10 0.05
Matches are distributed among these distances:
33 14 0.18
34 53 0.68
35 11 0.14
ACGTcount: A:0.19, C:0.12, G:0.37, T:0.33
Consensus pattern (33 bp):
AAAGTTTGGGTTTTGTTGCCGCGGTTAGAGGAC
Found at i:21339680 original size:138 final size:138
Alignment explanation
Indices: 21339526--21339808 Score: 406
Period size: 138 Copynumber: 2.1 Consensus size: 138
21339516 AGTGCCGCCA
21339526 GTTAGAGGACAAAGTTTAGGTTTTGTTGCCACTGGTTAGAAAGGGAAAGCTTGGATTTGGCGCCG
1 GTTAGAGGACAAAGTTTAGGTTTTGTTGCCACTGGTTAGAAAGGGAAAGCTTGGATTTGGCGCCG
* * *
21339591 TC-GGTCAAAGAGTGTTAAAGTCTGGGTTTAGTGCCGCCGGTTAGAAGACAAAGTTTGGGTTTTG
66 -CAGGTCAAAGAGTGTTAAAGCCTGGGTTTAATGCCGCCGGTTAGAAGACAAAGTTCGGGTTTTG
* *
21339655 TTGTCGTCG
130 TTGTAGCCG
* * * * * *
21339664 GTTAGAGGACAAAGTTTGGGTTTTGTTGCCGCTGGTTAGAGAGGGAAAGTTTGGGTTTGGTGCCG
1 GTTAGAGGACAAAGTTTAGGTTTTGTTGCCACTGGTTAGAAAGGGAAAGCTTGGATTTGGCGCCG
* * ** *
21339729 CAGGTCAAAGGGTGTTAAAGCCTGGGTTTAATGTCGTTGGTTAGAGGACAAAGTTCGGGTTTTGT
66 CAGGTCAAAGAGTGTTAAAGCCTGGGTTTAATGCCGCCGGTTAGAAGACAAAGTTCGGGTTTTGT
21339794 TGTAGCCG
131 TGTAGCCG
21339802 GTTAGAG
1 GTTAGAG
21339809 AGGGAAAGTT
Statistics
Matches: 128, Mismatches: 16, Indels: 2
0.88 0.11 0.01
Matches are distributed among these distances:
137 1 0.01
138 127 0.99
ACGTcount: A:0.22, C:0.12, G:0.35, T:0.31
Consensus pattern (138 bp):
GTTAGAGGACAAAGTTTAGGTTTTGTTGCCACTGGTTAGAAAGGGAAAGCTTGGATTTGGCGCCG
CAGGTCAAAGAGTGTTAAAGCCTGGGTTTAATGCCGCCGGTTAGAAGACAAAGTTCGGGTTTTGT
TGTAGCCG
Found at i:21344321 original size:49 final size:45
Alignment explanation
Indices: 21344196--21344342 Score: 204
Period size: 45 Copynumber: 3.2 Consensus size: 45
21344186 TAGACAAATT
* *
21344196 AAATGTAAACTTATATGTGGCTAACATTGAAAGATATTGTCCATG
1 AAATGAAAACTTATATGTGGCTAACATTGAAAGATATTATCCATG
* *
21344241 AAATCAAAACTTATATGTGGCTAACATTGAAAGATACTATCCATG
1 AAATGAAAACTTATATGTGGCTAACATTGAAAGATATTATCCATG
*
21344286 AAATGAAAACTTGTATATATGTGGCTAACATTGAAAGATATTATTCATG
1 AAATGAAAAC---T-TATATGTGGCTAACATTGAAAGATATTATCCATG
*
21344335 AAAAGAAA
1 AAATGAAA
21344343 GCGACATGAG
Statistics
Matches: 90, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
45 50 0.56
48 1 0.01
49 39 0.43
ACGTcount: A:0.43, C:0.11, G:0.16, T:0.31
Consensus pattern (45 bp):
AAATGAAAACTTATATGTGGCTAACATTGAAAGATATTATCCATG
Found at i:21345795 original size:51 final size:45
Alignment explanation
Indices: 21345680--21345779 Score: 164
Period size: 45 Copynumber: 2.2 Consensus size: 45
21345670 AATTAAGTGT
* *
21345680 AAACTTATATGTGGCTAGCATTGAAAGATATTATCCATGAAATCA
1 AAACTTATATGTGGCTAACATTGAAAGATACTATCCATGAAATCA
* *
21345725 AAACTTATATGTGGCTAACAGTGAAAGATACTATCCATGAAATGA
1 AAACTTATATGTGGCTAACATTGAAAGATACTATCCATGAAATCA
21345770 AAACTTATAT
1 AAACTTATAT
21345780 ATATATGTGG
Statistics
Matches: 51, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 51 1.00
ACGTcount: A:0.42, C:0.13, G:0.15, T:0.30
Consensus pattern (45 bp):
AAACTTATATGTGGCTAACATTGAAAGATACTATCCATGAAATCA
Found at i:21347143 original size:29 final size:28
Alignment explanation
Indices: 21347056--21347145 Score: 87
Period size: 29 Copynumber: 3.2 Consensus size: 28
21347046 ACATACCTAC
* *
21347056 ATGTAACAACATTTTTTTTAAA-ATAGT
1 ATGTAACAACAATTTTTTTAAACATGGT
* * * *
21347083 GTCTAGCAA-AATTTTTTTAAACATGACT
1 ATGTAACAACAATTTTTTTAAACATG-GT
21347111 -TGTAACAACAATATTTTTTAAACATGGT
1 ATGTAACAACAAT-TTTTTTAAACATGGT
21347139 ATGTAAC
1 ATGTAAC
21347146 TTACTCCTTT
Statistics
Matches: 49, Mismatches: 9, Indels: 8
0.74 0.14 0.12
Matches are distributed among these distances:
26 11 0.22
27 14 0.29
28 5 0.10
29 19 0.39
ACGTcount: A:0.39, C:0.11, G:0.10, T:0.40
Consensus pattern (28 bp):
ATGTAACAACAATTTTTTTAAACATGGT
Found at i:21347232 original size:26 final size:27
Alignment explanation
Indices: 21347196--21347266 Score: 99
Period size: 27 Copynumber: 2.7 Consensus size: 27
21347186 TAAACACCTC
*
21347196 AAACATAACGTGTAATAAT-TTTTTTT
1 AAACATAACGTGTAATAATATTTTTCT
* *
21347222 CAACATAACGTGTAACAATATTTTTCT
1 AAACATAACGTGTAATAATATTTTTCT
*
21347249 AAACATAGCGTGTAATAA
1 AAACATAACGTGTAATAA
21347267 AAACATTTTT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
26 17 0.45
27 21 0.55
ACGTcount: A:0.41, C:0.13, G:0.10, T:0.37
Consensus pattern (27 bp):
AAACATAACGTGTAATAATATTTTTCT
Found at i:21353073 original size:17 final size:17
Alignment explanation
Indices: 21353051--21353083 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
21353041 TTTATAAGTG
*
21353051 TTTAATGAAAAAAGAAT
1 TTTAATAAAAAAAGAAT
21353068 TTTAATAAAAAAAGAA
1 TTTAATAAAAAAAGAA
21353084 GAGTAATTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.64, C:0.00, G:0.09, T:0.27
Consensus pattern (17 bp):
TTTAATAAAAAAAGAAT
Found at i:21355870 original size:91 final size:90
Alignment explanation
Indices: 21355603--21355888 Score: 297
Period size: 91 Copynumber: 3.1 Consensus size: 90
21355593 AATTTTCCAT
* ** * * *
21355603 CCCATTTATCCCTATTTTAATTAC-CAATGAAAGATTCTGTCAATTATTTCATCGATAATTAAAA
1 CCCATTTATCCCTATTTTAATTACTGAA-G-AATCTTCTGTCAGTGATTTCATCAATAATTAAAA
**
21355667 TAAAAATCCACACGTCTGATTTTTTTC
64 TAAAAATCCACACGTGAGATTTTTTTC
* * * ** * **
21355694 CTCATGTATCCTTATTTTAATTTTTGATGAAATCTTCTGTCAGTGATTTTGTCAATAATTAAAAT
1 CCCATTTATCCCTATTTTAATTACTGAAG-AATCTTCTGTCAGTGATTTCATCAATAATTAAAAT
* *
21355759 AAAAATCTACACGCGAGATTTTTTTC
65 AAAAATCCACACGTGAGATTTTTTTC
* *
21355785 CCCATTTATCCCTATTTTAATTACTGACAGAATCTTTTGTCAGTGATTCCATCAATAATTAAAAT
1 CCCATTTATCCCTATTTTAATTACTGA-AGAATCTTCTGTCAGTGATTTCATCAATAATTAAAAT
* * *
21355850 AAAAATCCCCACGTGGGA-TTTCTTC
65 AAAAATCCACACGTGAGATTTTTTTC
*
21355875 CCTCATTTCTCCCT
1 CC-CATTTATCCCT
21355889 TTTCTCTTCT
Statistics
Matches: 158, Mismatches: 34, Indels: 6
0.80 0.17 0.03
Matches are distributed among these distances:
90 8 0.05
91 148 0.94
92 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.09, T:0.40
Consensus pattern (90 bp):
CCCATTTATCCCTATTTTAATTACTGAAGAATCTTCTGTCAGTGATTTCATCAATAATTAAAATA
AAAATCCACACGTGAGATTTTTTTC
Found at i:21359604 original size:23 final size:23
Alignment explanation
Indices: 21359578--21359623 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
21359568 TAGAATAACA
*
21359578 ATTCCTAATTTTATTAGGATAAG
1 ATTCCTAATTGTATTAGGATAAG
21359601 ATTCCTAATTGTATTAGGATAAG
1 ATTCCTAATTGTATTAGGATAAG
21359624 GTTATTGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.35, C:0.09, G:0.15, T:0.41
Consensus pattern (23 bp):
ATTCCTAATTGTATTAGGATAAG
Found at i:21363111 original size:23 final size:23
Alignment explanation
Indices: 21363081--21363126 Score: 83
Period size: 23 Copynumber: 2.0 Consensus size: 23
21363071 TAGAATAACA
*
21363081 ATTCCTAATTCTATTAGGATAAG
1 ATTCCTAATTATATTAGGATAAG
21363104 ATTCCTAATTATATTAGGATAAG
1 ATTCCTAATTATATTAGGATAAG
21363127 GTTATTGTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.37, C:0.11, G:0.13, T:0.39
Consensus pattern (23 bp):
ATTCCTAATTATATTAGGATAAG
Found at i:21366573 original size:21 final size:21
Alignment explanation
Indices: 21366516--21366574 Score: 64
Period size: 21 Copynumber: 2.8 Consensus size: 21
21366506 TTTTTTAAAT
* * *
21366516 ATTGCGTAACTGGTTTTAGGC
1 ATTGCGTGACTGATTTTAGAC
* * *
21366537 ATTGCATGATTAATTTTAGAC
1 ATTGCGTGACTGATTTTAGAC
21366558 ATTGCGTGACTGATTTT
1 ATTGCGTGACTGATTTT
21366575 TAAGCAATGT
Statistics
Matches: 29, Mismatches: 9, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
21 29 1.00
ACGTcount: A:0.24, C:0.12, G:0.22, T:0.42
Consensus pattern (21 bp):
ATTGCGTGACTGATTTTAGAC
Found at i:21366617 original size:23 final size:23
Alignment explanation
Indices: 21366587--21366667 Score: 101
Period size: 23 Copynumber: 3.6 Consensus size: 23
21366577 AGCAATGTAT
21366587 AAGTCACGCAATGCCTTATTAAC
1 AAGTCACGCAATGCCTTATTAAC
21366610 AAGTCACGCAATGCCTTATTAAC
1 AAGTCACGCAATGCCTTATTAAC
* * * *
21366633 TAGTCACGTAATTCC-TATCAAC
1 AAGTCACGCAATGCCTTATTAAC
* *
21366655 TAGTCAAGCAATG
1 AAGTCACGCAATG
21366668 TCATATCAAC
Statistics
Matches: 51, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
22 16 0.31
23 35 0.69
ACGTcount: A:0.35, C:0.25, G:0.14, T:0.27
Consensus pattern (23 bp):
AAGTCACGCAATGCCTTATTAAC
Found at i:21366683 original size:45 final size:46
Alignment explanation
Indices: 21366588--21366689 Score: 107
Period size: 45 Copynumber: 2.2 Consensus size: 46
21366578 GCAATGTATA
* * * * *
21366588 AGTCACGCAATGCCTTATTAACAAGTCACGCAATGCCTTATTAACT
1 AGTCACGCAATGCCTTATCAACAAGTCAAGCAATGCCATATCAACC
* * * *
21366634 AGTCACGTAATTCC-TATCAACTAGTCAAGCAATGTCATATCAACC
1 AGTCACGCAATGCCTTATCAACAAGTCAAGCAATGCCATATCAACC
*
21366679 AGTCACACAAT
1 AGTCACGCAAT
21366690 ACTTAAAAAT
Statistics
Matches: 45, Mismatches: 11, Indels: 1
0.79 0.19 0.02
Matches are distributed among these distances:
45 33 0.73
46 12 0.27
ACGTcount: A:0.35, C:0.26, G:0.12, T:0.26
Consensus pattern (46 bp):
AGTCACGCAATGCCTTATCAACAAGTCAAGCAATGCCATATCAACC
Found at i:21366729 original size:22 final size:22
Alignment explanation
Indices: 21366679--21366769 Score: 83
Period size: 22 Copynumber: 4.1 Consensus size: 22
21366669 CATATCAACC
* * *
21366679 AGTCACACAATACTTAAAAATC
1 AGTCACGCAATATTTAAAAATT
*
21366701 AGTCACGCAATGTTTAAAAATT
1 AGTCACGCAATATTTAAAAATT
* * *
21366723 AGTCACGTAATATCTACAAATT
1 AGTCACGCAATATTTAAAAATT
* * **
21366745 AGTCATGTAATACCTAAAAATT
1 AGTCACGCAATATTTAAAAATT
21366767 AGT
1 AGT
21366770 AATGTAATGC
Statistics
Matches: 58, Mismatches: 11, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
22 58 1.00
ACGTcount: A:0.44, C:0.16, G:0.10, T:0.30
Consensus pattern (22 bp):
AGTCACGCAATATTTAAAAATT
Found at i:21366774 original size:22 final size:22
Alignment explanation
Indices: 21366715--21366793 Score: 104
Period size: 22 Copynumber: 3.6 Consensus size: 22
21366705 ACGCAATGTT
* *
21366715 TAAAAATTAGTCACGTAATATC
1 TAAAAATTAGTCATGTAATACC
*
21366737 TACAAATTAGTCATGTAATACC
1 TAAAAATTAGTCATGTAATACC
* *
21366759 TAAAAATTAGTAATGTAATGCC
1 TAAAAATTAGTCATGTAATACC
*
21366781 TAAAAACTAGTCA
1 TAAAAATTAGTCA
21366794 AACAATGTCC
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 49 1.00
ACGTcount: A:0.46, C:0.14, G:0.10, T:0.30
Consensus pattern (22 bp):
TAAAAATTAGTCATGTAATACC
Found at i:21370960 original size:14 final size:14
Alignment explanation
Indices: 21370941--21370969 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
21370931 GTGGGAAAGT
21370941 AAGAAATATTAGAA
1 AAGAAATATTAGAA
21370955 AAGAAATATTAGAA
1 AAGAAATATTAGAA
21370969 A
1 A
21370970 TACCCTTCTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.66, C:0.00, G:0.14, T:0.21
Consensus pattern (14 bp):
AAGAAATATTAGAA
Found at i:21374436 original size:24 final size:23
Alignment explanation
Indices: 21374391--21374436 Score: 56
Period size: 23 Copynumber: 2.0 Consensus size: 23
21374381 GACGTGTTTT
* * *
21374391 AAATTGAGATTTTTTTTAATTAG
1 AAATAGAGAGTTTTTTAAATTAG
21374414 AAATAGAGAGTTTTTTAACATTA
1 AAATAGAGAGTTTTTTAA-ATTA
21374437 AAGTATGCCT
Statistics
Matches: 19, Mismatches: 3, Indels: 1
0.83 0.13 0.04
Matches are distributed among these distances:
23 15 0.79
24 4 0.21
ACGTcount: A:0.39, C:0.02, G:0.13, T:0.46
Consensus pattern (23 bp):
AAATAGAGAGTTTTTTAAATTAG
Found at i:21376767 original size:3 final size:3
Alignment explanation
Indices: 21376761--21376787 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
21376751 GAATCAACCT
21376761 TTC TTC TTC TTC TTC TTC TTC TTC TTC
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC
21376788 CATTGTCTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
TTC
Found at i:21378539 original size:22 final size:22
Alignment explanation
Indices: 21378489--21378542 Score: 63
Period size: 22 Copynumber: 2.5 Consensus size: 22
21378479 ATGTCTTACT
* **
21378489 AATCAGTCACGTAATACTTATC
1 AATCAGTCACGCAATACTTAAA
* *
21378511 AACCAGTTACGCAATACTTAAA
1 AATCAGTCACGCAATACTTAAA
21378533 AATCAGTCAC
1 AATCAGTCAC
21378543 ATAATGTATA
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
22 25 1.00
ACGTcount: A:0.41, C:0.24, G:0.09, T:0.26
Consensus pattern (22 bp):
AATCAGTCACGCAATACTTAAA
Found at i:21378754 original size:51 final size:52
Alignment explanation
Indices: 21378698--21378834 Score: 140
Period size: 51 Copynumber: 2.7 Consensus size: 52
21378688 GTTTACTTCG
* *
21378698 TAAAAAATGCTCAAAATGCTCCAAGTTTTTTTTTCATATATTAAAAATCA-C
1 TAAAAAATGCTCAAAATGCTCCAAGTTTTTTTTTCATATATCAAAAACCATC
* * *
21378749 TAAAAAATGCTCAAAA--CTCTCAAATATTTTTATTCATATATCAAAAACCATT
1 TAAAAAATGCTCAAAATGCTC-CAAGT-TTTTTTTTCATATATCAAAAACCATC
**
21378801 TCAAAAAA--CTCAAAATGCTTAAAGATTTTTTTTT
1 T-AAAAAATGCTCAAAATGCTCCAAG-TTTTTTTTT
21378835 TATAAGAAAT
Statistics
Matches: 70, Mismatches: 9, Indels: 13
0.76 0.10 0.14
Matches are distributed among these distances:
49 3 0.04
50 4 0.06
51 44 0.63
52 10 0.14
53 9 0.13
ACGTcount: A:0.43, C:0.15, G:0.04, T:0.37
Consensus pattern (52 bp):
TAAAAAATGCTCAAAATGCTCCAAGTTTTTTTTTCATATATCAAAAACCATC
Found at i:21396268 original size:2 final size:2
Alignment explanation
Indices: 21396261--21396354 Score: 100
Period size: 2 Copynumber: 46.0 Consensus size: 2
21396251 GATCACCCAC
21396261 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AGT AGT AGT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A-T A-T A-T
* ** ** *
21396306 -T AG NC CC AC AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
21396347 AT AT AT AT
1 AT AT AT AT
21396355 GAGTAGTATT
Statistics
Matches: 84, Mismatches: 6, Indels: 4
0.89 0.06 0.04
Matches are distributed among these distances:
1 1 0.01
2 76 0.90
3 7 0.08
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.45
Consensus pattern (2 bp):
AT
Found at i:21396694 original size:16 final size:16
Alignment explanation
Indices: 21396673--21396706 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
21396663 GGAAATTAAA
21396673 TTGAAATATTTT-TTTT
1 TTGAAA-ATTTTATTTT
21396689 TTGAAAATTTTATTTT
1 TTGAAAATTTTATTTT
21396705 TT
1 TT
21396707 TGTATTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.26, C:0.00, G:0.06, T:0.68
Consensus pattern (16 bp):
TTGAAAATTTTATTTT
Found at i:21396704 original size:15 final size:16
Alignment explanation
Indices: 21396673--21396705 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
21396663 GGAAATTAAA
*
21396673 TTGAAATATTTTTTTT
1 TTGAAATATTTTATTT
21396689 TTGAAA-ATTTTATTT
1 TTGAAATATTTTATTT
21396704 TT
1 TT
21396706 TTGTATTTAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 10 0.62
16 6 0.38
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (16 bp):
TTGAAATATTTTATTT
Found at i:21399144 original size:275 final size:273
Alignment explanation
Indices: 21398438--21399970 Score: 1582
Period size: 275 Copynumber: 5.6 Consensus size: 273
21398428 TGCAACTAAG
* * * *
21398438 CATTTGACTCATTGATTGGTGCATCAT-TTCTCTACTCAAAGAGTGGGGTTCGAATCCTCCTTT-
1 CATTTGGCTCATTGATTGGTGCATGATCTTC-CTGCTCAAAGAGTAGGGTTCGAAT-C-CCTTTC
* * * * *
21398501 CCCAAATAAAAAAAA-ATATGTATTTTTATAAATTAAATTCATGTAAATTATGAGGTCTCTTCTA
63 CCCTAATAAAAAAAAGTTATGTATTTTTATGAATTAAATTCATGTGAATTATGAGGTGTCTTCTA
* * *
21398565 TTTATTTGTGCTTTTTATGGATTATGTTTTTATGGCATCTTTTCTCGTTTTCAGTTGACTTTTTT
128 TTTATGTGTGCTTTTTATGGGTTATGTTTTTATGGCTTCTTTTCTCGTTTTCAGTTGACTTTTTT
* *
21398630 CACCCCTTGATAAATGGAGTTTATGGTATTTTAGGAATTTCATTGAAAAAGTTTTTAAAAGTATA
193 CACCCCTTGAT--ATGGAGTTTTTGGTATTTTAGGAATTTCATTGAAGAAGTTTTTAAAAGTATA
*
21398695 CATTATGATGTACTT-GAA
256 CATTATGATGCA-TTCGAA
* * * * * * * * *
21398713 CATTTAGTTCATTGATTGATACATGGTC-TCCTTGCTCAACGAGTAGGGTTTGAATCCCCTTACT
1 CATTTGGCTCATTGATTGGTGCATGATCTTCC-TGCTCAAAGAGTAGGGTTCGAAT-CCCTTTCC
* *
21398777 GCTAATAAAAATAAAG-TATGTATTTTTATGAATTAAATTCATGTGAATTATGAGGTGTCTTTTA
64 CCTAATAAAAA-AAAGTTATGTATTTTTATGAATTAAATTCATGTGAATTATGAGGTGTCTTCTA
*** * *
21398841 TTTATGTGTGCTTTTTTATAACTTATGTTTTTATGGCTTCTTTTCTTGTTTTCAGTTGGCTTTTT
128 TTTATGTGTGC-TTTTTATGGGTTATGTTTTTATGGCTTCTTTTCTCGTTTTCAGTTGACTTTTT
* * * *
21398906 TCACTCCTTGAT-TGGAGTATTTGGTATTTTAGGAATTTCATTGATGAAGTTTTTAAAAATATGA
192 TCACCCCTTGATATGGAGTTTTTGGTATTTTAGGAATTTCATTGAAGAAGTTTTTAAAAGTAT-A
21398970 -ATTATGATGCATTCGAA
256 CATTATGATGCATTCGAA
* * *
21398987 CATTTGGCTCATTGATCGGTGTATGATCTTCCTACTCAAAGAAG-AGGGTTCGAATCCTCTTTCC
1 CATTTGGCTCATTGATTGGTGCATGATCTTCCTGCTCAAAG-AGTAGGGTTCGAATCC-CTTTCC
* * * *
21399051 CCTGATAAAGAAAAAGTTATTTATTTTTATGAATTAAATTCAAGTGAATTATGATGTGTCTTCTA
64 CCTAATAAA-AAAAAGTTATGTATTTTTATGAATTAAATTCATGTGAATTATGAGGTGTCTTCTA
* * *
21399116 CTTATGTGTGCATTTTTATGGGTTATGTTTTTATAGCTTATTTTCTCGTTTTCAGTTGACTTTTT
128 TTTATGTGTGC-TTTTTATGGGTTATGTTTTTATGGCTTCTTTTCTCGTTTTCAGTTGACTTTTT
* *
21399181 TCACCCCTCGATGAATGGAGTTTTTGGTATTTTAGGAATTTCATTGAAGAAGTTTTTATAAGTAT
192 TCACCCCTTGAT--ATGGAGTTTTTGGTATTTTAGGAATTTCATTGAAGAAGTTTTTAAAAGTAT
* * * *
21399246 GCATTATGACGCA-ACTAA
255 ACATTATGATGCATTCGAA
** * * * **
21399264 GCATTTGTTTCATTGATTGATACATTATCACCCTGCTCAAAGAGTAGGGTTCGAATCCCTCTTCC
1 -CATTTGGCTCATTGATTGGTGCATGATCTTCCTGCTCAAAGAGTAGGGTTCGAATCCCT-TTCC
* * *
21399329 CTCAAATAAAAAAAAATTATGTATTTTTATGAATTAGATTCATGTGAATTATGAGGTGTCTTCTA
64 C-CTAATAAAAAAAAGTTATGTATTTTTATGAATTAAATTCATGTGAATTATGAGGTGTCTTCTA
* * * *
21399394 TTTGTGTGTGTGTTTTTATGGGATATGTTTTTATCGCTTC-TTTCTCGTTTTCAGTT--CTTTTT
128 TTTATGTGTG-CTTTTTATGGGTTATGTTTTTATGGCTTCTTTTCTCGTTTTCAGTTGACTTTTT
* * *
21399456 TCAGCCCTTGATAAATGGAGTTTTTGGTATTTTAAGAATTTCATTTAAGAAGTTTTTAAAAGTAT
192 TCACCCCTTGAT--ATGGAGTTTTTGGTATTTTAGGAATTTCATTGAAGAAGTTTTTAAAAGTAT
* * *
21399521 ACTTTATGATGCATCCGAG
255 ACATTATGATGCATTCGAA
* * * *
21399540 CATTTGGCTCATTGTTTAGTGCATGATCTTACTGCTTAAAGAGTAGGGTTCGAATCCCTCTTCCC
1 CATTTGGCTCATTGATTGGTGCATGATCTTCCTGCTCAAAGAGTAGGGTTCGAATCCCT-TTCCC
* *
21399605 TCAAAT-ATAAAAAGTTATGTATTTTTATGAATTAAATTCATGTGAATTATGAGGTGTCTTCTAT
65 -CTAATAAAAAAAAGTTATGTATTTTTATGAATTAAATTCATGTGAATTATGAGGTGTCTTCTAT
* * * ** ***
21399669 TTATGTGTGCTTCTTT-T--CTCA--TTTTCA--G----TTGACT--TTTTC-----AC-CCCTT
129 TTATGTGTGCTT-TTTATGGGTTATGTTTTTATGGCTTCTTTTCTCGTTTTCAGTTGACTTTTTT
* * * * * *
21399715 GA-----T-AAATGGAGTTTTTGGTATTTTAGGAATGTCATT-ACAGAAGTTTTAAAAAGGATGC
193 CACCCCTTGATATGGAGTTTTTGGTATTTTAGGAATTTCATTGA-AGAAGTTTTTAAAAGTATAC
* *
21399773 ATTATTAATGCATTCGAG
257 ATTA-TGATGCATTCGAA
* * * * **
21399791 CATTTGGCTTATTGATTGGTACATGGTTTTTTTGCTCAAAGAGTAGGGTTCGAAATCCCTTTCCC
1 CATTTGGCTCATTGATTGGTGCATGATCTTCCTGCTCAAAGAGTAGGGTTCG-AATCCCTTTCCC
*
21399856 CTAATAAAAGAAAAAATTATGTA-TTTTATGAATTAAATTCATGTGAATTATGAGGTGTCTTCTA
65 CTAAT-AAA-AAAAAGTTATGTATTTTTATGAATTAAATTCATGTGAATTATGAGGTGTCTTCTA
*
21399920 TTTATTTGTGCTTTTTAATGGGTTATGTTTTTATGGCTTCTTTTCTCGTTT
128 TTTATGTGTGCTTTTT-ATGGGTTATGTTTTTATGGCTTCTTTTCTCGTTT
21399971 CCTTAATGAG
Statistics
Matches: 1054, Mismatches: 158, Indels: 102
0.80 0.12 0.08
Matches are distributed among these distances:
249 1 0.00
250 53 0.05
251 62 0.06
252 62 0.06
253 14 0.01
255 2 0.00
257 5 0.00
258 3 0.00
259 2 0.00
262 5 0.00
263 4 0.00
264 3 0.00
265 3 0.00
267 1 0.00
269 5 0.00
271 1 0.00
273 7 0.01
274 182 0.17
275 305 0.29
276 59 0.06
277 81 0.08
278 188 0.18
279 6 0.01
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.44
Consensus pattern (273 bp):
CATTTGGCTCATTGATTGGTGCATGATCTTCCTGCTCAAAGAGTAGGGTTCGAATCCCTTTCCCC
TAATAAAAAAAAGTTATGTATTTTTATGAATTAAATTCATGTGAATTATGAGGTGTCTTCTATTT
ATGTGTGCTTTTTATGGGTTATGTTTTTATGGCTTCTTTTCTCGTTTTCAGTTGACTTTTTTCAC
CCCTTGATATGGAGTTTTTGGTATTTTAGGAATTTCATTGAAGAAGTTTTTAAAAGTATACATTA
TGATGCATTCGAA
Found at i:21399619 original size:552 final size:548
Alignment explanation
Indices: 21398438--21399970 Score: 1774
Period size: 552 Copynumber: 2.8 Consensus size: 548
21398428 TGCAACTAAG
* ** * * * *
21398438 CATTTGACTCATTGATTGGTGCATCAT-TTCTCTACTCAAAGAGTGGGGTTCGAATCCTCCTTTC
1 CATTTGGCTCATTGATCAGTGCATGATCTT-ACTACTCAAAGAGTAGGGTTCGAATCCT-CTTCC
** * * * *
21398502 C-CAAATAAAAAAAAATATGTATTTTTATAAATTAAATTCATGTAAATTATGAGGTCTCTTCTAT
64 CTCAAATAAAAAAAGTTATGTATTTTTATGAATTAAATTCATGTGAATTATGAGGTGTCTTCTAC
* *
21398566 TTATTTGTGC-TTTTTATGGATTATGTTTTTATGGCATCTTTTCTCGTTTTCAGTTGACTTTTTT
129 TTA-TTGTGCATTTTTATGGGTTATGTTTTTAT-GCTTCTTTTCTCGTTTTCAGTTGACTTTTTT
* * *
21398630 CACCCCTTGATAAATGGAGTTTATGGTATTTTAGGAATTTCATTGAAAAAGTTTTTAAAAGTATA
192 CACCCCTTGATAAATGGAGTTTTTGGTATTTTAGGAATTTCATTGAAGAAGTTTTTAAAAGTATG
* * *
21398695 CATTATGATGTACTTGAA-CATTTAGTTCATTGATTGATACATGGTCTCCTTGCTCAACGAGTAG
257 CATTATGATGCAC-TCAAGCATTTAGTTCATTGATTGATACATGGTCTCCTTGCTCAAAGAGTAG
* * * *
21398759 GGTTTGAATCCC-CTT-ACTGCTAATAAAAATAAAGTATGTATTTTTATGAATTAAATTCATGTG
321 GGTTCGAATCCCTCTTCCCT-CTAATAAAAAAAAATTATGTATTTTTATGAATTAAATTCATGTG
* ***
21398822 AATTATGAGGTGTCTTTTATTTATGTGTGCT-TTTTTATAACTTATGTTTTTATGGCTTCTTTTC
385 AATTATGAGGTGTCTTCTATTTATGTGTG-TGTTTTTATGGGTTATGTTTTTATGGCTTCTTTTC
* * *
21398886 TTGTTTTCAGTTGGCTTTTTTCACTCCTTGATTGGAGTATTTGGTATTTTAGGAATTTCATTGAT
449 TCGTTTTCAGTT-GCTTTTTTCACTCCTTGATTGGAGTATTTGGTATTTTAAGAATTTCATTGAA
*
21398951 GAAGTTTTTAAAAATATGAATTATGATGCATTCGAA
513 GAAGTTTTTAAAAATATGAATTATGATGCATCCGAA
* * *
21398987 CATTTGGCTCATTGATCGGTGTATGATCTTCCTACTCAAAGAAG-AGGGTTCGAATCCTCTTTCC
1 CATTTGGCTCATTGATCAGTGCATGATCTTACTACTCAAAG-AGTAGGGTTCGAATCCTC-TT-C
* * * * *
21399051 CCTGATAA-AGAAAAAGTTATTTATTTTTATGAATTAAATTCAAGTGAATTATGATGTGTCTTCT
63 CCTCA-AATAAAAAAAGTTATGTATTTTTATGAATTAAATTCATGTGAATTATGAGGTGTCTTCT
*
21399115 ACTTATGTGTGCATTTTTATGGGTTATGTTTTTATAGCTTATTTTCTCGTTTTCAGTTGACTTTT
127 ACTTAT-TGTGCATTTTTATGGGTTATGTTTTTAT-GCTTCTTTTCTCGTTTTCAGTTGACTTTT
* * *
21399180 TTCACCCCTCGATGAATGGAGTTTTTGGTATTTTAGGAATTTCATTGAAGAAGTTTTTATAAGTA
190 TTCACCCCTTGATAAATGGAGTTTTTGGTATTTTAGGAATTTCATTGAAGAAGTTTTTAAAAGTA
* ** * *
21399245 TGCATTATGACGCAACT-AAGCATTT-GTTTCATTGATTGATACATTATCACCCTGCTCAAAGAG
255 TGCATTATGATGC-ACTCAAGCATTTAG-TTCATTGATTGATACATGGTCTCCTTGCTCAAAGAG
* *
21399308 TAGGGTTCGAATCCCTCTTCCCTCAAATAAAAAAAAATTATGTATTTTTATGAATTAGATTCATG
318 TAGGGTTCGAATCCCTCTTCCCTCTAATAAAAAAAAATTATGTATTTTTATGAATTAAATTCATG
* * *
21399373 TGAATTATGAGGTGTCTTCTATTTGTGTGTGTGTTTTTATGGGATATGTTTTTATCGCTTC-TTT
383 TGAATTATGAGGTGTCTTCTATTTATGTGTGTGTTTTTATGGGTTATGTTTTTATGGCTTCTTTT
*
21399437 CTCGTTTTCAGTT-CTTTTTTCAGC-CCTTGATAAATGGAGTTTTTGGTATTTTAAGAATTTCAT
448 CTCGTTTTCAGTTGCTTTTTTCA-CTCCTTGAT---TGGAGTATTTGGTATTTTAAGAATTTCAT
* * * *
21399500 TTAAGAAGTTTTTAAAAGTAT-ACTTTATGATGCATCCGAG
509 TGAAGAAGTTTTTAAAAATATGA-ATTATGATGCATCCGAA
* * * *
21399540 CATTTGGCTCATTGTTTAGTGCATGATCTTACTGCTTAAAGAGTAGGGTTCGAATCCCTCTTCCC
1 CATTTGGCTCATTGATCAGTGCATGATCTTACTACTCAAAGAGTAGGGTTCGAAT-CCTCTTCCC
*
21399605 TCAAATATAAAAAGTTATGTATTTTTATGAATTAAATTCATGTGAATTATGAGGTGTC-T-T-C-
65 TCAAATAAAAAAAGTTATGTATTTTTATGAATTAAATTCATGTGAATTATGAGGTGTCTTCTACT
*
21399666 -----T--A--TTTAT--G---TG------TGCTTCTTTTCTCATTTTCAGTTGAC-TTTTTCAC
130 TATTGTGCATTTTTATGGGTTATGTTTTTATGCTTCTTTTCTCGTTTTCAGTTGACTTTTTTCAC
* * *
21399710 CCCTTGATAAATGGAGTTTTTGGTATTTTAGGAATGTCATT-ACAGAAGTTTTAAAAAGGATGCA
195 CCCTTGATAAATGGAGTTTTTGGTATTTTAGGAATTTCATTGA-AGAAGTTTTTAAAAGTATGCA
* * * * * * **
21399774 TTATTAATGCATTCGAGCATTTGGCTT-ATTGATTGGTACATGGTTTTTTTGCTCAAAGAGTAGG
259 TTA-TGATGCACTCAAGCATTTAG-TTCATTGATTGATACATGGTCTCCTTGCTCAAAGAGTAGG
21399838 GTTCGAAATCCCT-TTCCC-CTAATAAAAGAAAAAATTATGTA-TTTTATGAATTAAATTCATGT
322 GTTCG-AATCCCTCTTCCCTCTAAT-AAA-AAAAAATTATGTATTTTTATGAATTAAATTCATGT
21399900 GAATTATGAGGTGTCTTCTATTTAT-T-TGTGCTTTTTAATGGGTTATGTTTTTATGGCTTCTTT
384 GAATTATGAGGTGTCTTCTATTTATGTGTGTG-TTTTT-ATGGGTTATGTTTTTATGGCTTCTTT
21399963 TCTCGTTT
447 TCTCGTTT
21399971 CCTTAATGAG
Statistics
Matches: 857, Mismatches: 95, Indels: 86
0.83 0.09 0.08
Matches are distributed among these distances:
524 5 0.01
525 79 0.09
526 141 0.16
527 34 0.04
533 2 0.00
536 1 0.00
538 5 0.01
540 1 0.00
542 1 0.00
548 1 0.00
549 49 0.06
550 24 0.03
551 64 0.07
552 243 0.28
553 201 0.23
554 6 0.01
ACGTcount: A:0.26, C:0.13, G:0.17, T:0.44
Consensus pattern (548 bp):
CATTTGGCTCATTGATCAGTGCATGATCTTACTACTCAAAGAGTAGGGTTCGAATCCTCTTCCCT
CAAATAAAAAAAGTTATGTATTTTTATGAATTAAATTCATGTGAATTATGAGGTGTCTTCTACTT
ATTGTGCATTTTTATGGGTTATGTTTTTATGCTTCTTTTCTCGTTTTCAGTTGACTTTTTTCACC
CCTTGATAAATGGAGTTTTTGGTATTTTAGGAATTTCATTGAAGAAGTTTTTAAAAGTATGCATT
ATGATGCACTCAAGCATTTAGTTCATTGATTGATACATGGTCTCCTTGCTCAAAGAGTAGGGTTC
GAATCCCTCTTCCCTCTAATAAAAAAAAATTATGTATTTTTATGAATTAAATTCATGTGAATTAT
GAGGTGTCTTCTATTTATGTGTGTGTTTTTATGGGTTATGTTTTTATGGCTTCTTTTCTCGTTTT
CAGTTGCTTTTTTCACTCCTTGATTGGAGTATTTGGTATTTTAAGAATTTCATTGAAGAAGTTTT
TAAAAATATGAATTATGATGCATCCGAA
Found at i:21434067 original size:92 final size:92
Alignment explanation
Indices: 21433910--21434093 Score: 332
Period size: 92 Copynumber: 2.0 Consensus size: 92
21433900 GTTGGATTGT
21433910 TGGGTAATTTGGTGTAACTTTCTGGACTTTGAAGGTGCATGAACTCATAATCAAAATATTTTAAT
1 TGGGTAATTTGGTGTAACTTTCTGGACTTTGAAGGTGCATGAACTCATAATCAAAATATTTTAAT
* *
21433975 CTTTTAGTCACTTGTTCACAGATGAGC
66 CTTATAGTCACTTGTTCACAGAAGAGC
* *
21434002 TGGGTAATTTGGTGTAACTTTCTGGACTTTGAAGGTGCATGAACTCATAGTCGAAATATTTTAAT
1 TGGGTAATTTGGTGTAACTTTCTGGACTTTGAAGGTGCATGAACTCATAATCAAAATATTTTAAT
21434067 CTTATAGTCACTTGTTCACAGAAGAGC
66 CTTATAGTCACTTGTTCACAGAAGAGC
21434094 ATTATCTTCT
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
92 88 1.00
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (92 bp):
TGGGTAATTTGGTGTAACTTTCTGGACTTTGAAGGTGCATGAACTCATAATCAAAATATTTTAAT
CTTATAGTCACTTGTTCACAGAAGAGC
Found at i:21438887 original size:6 final size:6
Alignment explanation
Indices: 21438876--21438903 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
21438866 AACTCTCTTT
21438876 ATCACC ATCACC ATCACC ATCACC ATCA
1 ATCACC ATCACC ATCACC ATCACC ATCA
21438904 TCAGCAGCAG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.36, C:0.46, G:0.00, T:0.18
Consensus pattern (6 bp):
ATCACC
Found at i:21445879 original size:13 final size:14
Alignment explanation
Indices: 21445861--21445889 Score: 51
Period size: 13 Copynumber: 2.1 Consensus size: 14
21445851 CTTGCACGAC
21445861 TATAACATG-TAAA
1 TATAACATGATAAA
21445874 TATAACATGATAAA
1 TATAACATGATAAA
21445888 TA
1 TA
21445890 ATATTTTAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 9 0.60
14 6 0.40
ACGTcount: A:0.55, C:0.07, G:0.07, T:0.31
Consensus pattern (14 bp):
TATAACATGATAAA
Found at i:21455797 original size:25 final size:25
Alignment explanation
Indices: 21455745--21455809 Score: 76
Period size: 25 Copynumber: 2.6 Consensus size: 25
21455735 AGATCAAGGA
* * *
21455745 TTAAGATTTAAGGTTTGATATCGGT
1 TTAAGATTTAAGATTGGATATCGAT
*
21455770 TTAAGATTTAAGATTGGATATTGAT
1 TTAAGATTTAAGATTGGATATCGAT
* *
21455795 TTAGGGTTTAAGATT
1 TTAAGATTTAAGATT
21455810 TAAGATTTGA
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 34 1.00
ACGTcount: A:0.31, C:0.02, G:0.23, T:0.45
Consensus pattern (25 bp):
TTAAGATTTAAGATTGGATATCGAT
Found at i:21460363 original size:58 final size:59
Alignment explanation
Indices: 21460284--21460400 Score: 146
Period size: 60 Copynumber: 2.0 Consensus size: 59
21460274 GACATCATCA
* * * * *
21460284 CCTACTCGTGGGAACTGCCCACACCACC-ATATGAACCGGGGCTTCAGGTCCCCCTTTG
1 CCTACTAGTGAGAACTACCCACACCACCAATATAAACCGGGGCTTCAAGTCCCCCTTTG
** *
21460342 CCTACTAGTGAGAACTACCCACGTCACCAAATATAAATCGGGGCTTCAAGTCCCCCTTT
1 CCTACTAGTGAGAACTACCCACACCACC-AATATAAACCGGGGCTTCAAGTCCCCCTTT
21460401 ACAATCAAAT
Statistics
Matches: 49, Mismatches: 8, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
58 23 0.47
60 26 0.53
ACGTcount: A:0.24, C:0.35, G:0.19, T:0.22
Consensus pattern (59 bp):
CCTACTAGTGAGAACTACCCACACCACCAATATAAACCGGGGCTTCAAGTCCCCCTTTG
Found at i:21460963 original size:3 final size:3
Alignment explanation
Indices: 21460955--21460989 Score: 63
Period size: 3 Copynumber: 12.0 Consensus size: 3
21460945 AGTGAAACCC
21460955 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT -TT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
21460990 TTTTTTCTTC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
2 2 0.06
3 29 0.94
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
ATT
Found at i:21461185 original size:47 final size:45
Alignment explanation
Indices: 21461134--21461231 Score: 117
Period size: 47 Copynumber: 2.1 Consensus size: 45
21461124 CTTTCTTCTT
*
21461134 CTTTCTTTTTCTCTCTCTTTCTT-TTCTCCAACACGCCACTACTCTCC
1 CTTTCTTTTCCTCTCTCTTTCTTCTTCTCCAACACG--A-TACTCTCC
* * * *
21461181 CTTTCTTTTCCTTTTTCTTTCTTCTTCTCCAGCACGATGCTCTCC
1 CTTTCTTTTCCTCTCTCTTTCTTCTTCTCCAACACGATACTCTCC
21461226 CTTTCT
1 CTTTCT
21461232 CTCTTTTTTT
Statistics
Matches: 45, Mismatches: 5, Indels: 4
0.83 0.09 0.07
Matches are distributed among these distances:
45 13 0.29
46 1 0.02
47 20 0.44
48 11 0.24
ACGTcount: A:0.08, C:0.38, G:0.04, T:0.50
Consensus pattern (45 bp):
CTTTCTTTTCCTCTCTCTTTCTTCTTCTCCAACACGATACTCTCC
Found at i:21461238 original size:43 final size:46
Alignment explanation
Indices: 21461149--21461243 Score: 110
Period size: 45 Copynumber: 2.1 Consensus size: 46
21461139 TTTTTCTCTC
*
21461149 TCTTTCTTTTCTCCAACACGCCACTACTCTCCCTTTCTTTTCCTTTT
1 TCTTTCTTTTCTCCAACACG-CACTACTCTCCCTTTCTTCTCCTTTT
* *
21461196 TCTTTCTTCTTCTCCAGCACG-A-TGCTCTCCCTTTC-TCT-CTTTT
1 TCTTTCTT-TTCTCCAACACGCACTACTCTCCCTTTCTTCTCCTTTT
21461239 T-TTTC
1 TCTTTC
21461244 CTCATTTCTT
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
42 4 0.09
43 6 0.14
44 2 0.05
45 12 0.27
46 1 0.02
47 8 0.18
48 11 0.25
ACGTcount: A:0.08, C:0.37, G:0.04, T:0.51
Consensus pattern (46 bp):
TCTTTCTTTTCTCCAACACGCACTACTCTCCCTTTCTTCTCCTTTT
Found at i:21461241 original size:45 final size:45
Alignment explanation
Indices: 21461134--21461243 Score: 111
Period size: 47 Copynumber: 2.4 Consensus size: 45
21461124 CTTTCTTCTT
* *
21461134 CTTTCTTTTTCTCTCTCTTTCTTTTCTCCAACACGCCACTACTCTCC
1 CTTTC-TTTTCTTTTTCTTTCTTTTCTCCAACACG-CACTACTCTCC
* *
21461181 CTTTCTTTTCCTTTTTCTTTCTTCTTCTCCAGCACG-A-TGCTCTCC
1 CTTTCTTTT-CTTTTTCTTTCTT-TTCTCCAACACGCACTACTCTCC
*
21461226 CTTTC-TCTCTTTTT-TTTC
1 CTTTCTTTTCTTTTTCTTTC
21461244 CTCATTTCTT
Statistics
Matches: 56, Mismatches: 5, Indels: 9
0.80 0.07 0.13
Matches are distributed among these distances:
42 4 0.07
43 6 0.11
44 2 0.04
45 12 0.21
46 5 0.09
47 16 0.29
48 11 0.20
ACGTcount: A:0.07, C:0.36, G:0.04, T:0.53
Consensus pattern (45 bp):
CTTTCTTTTCTTTTTCTTTCTTTTCTCCAACACGCACTACTCTCC
Found at i:21461731 original size:22 final size:22
Alignment explanation
Indices: 21461689--21461731 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
21461679 ATATTATTGG
**
21461689 TAATTAAATTATTAATTTTATA
1 TAATTAAATTATTAAAATTATA
21461711 TAATTAAA-TATATAAAATTAT
1 TAATTAAATTAT-TAAAATTAT
21461732 TTATTTTTTT
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
21 3 0.17
22 15 0.83
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (22 bp):
TAATTAAATTATTAAAATTATA
Found at i:21462106 original size:7 final size:7
Alignment explanation
Indices: 21462094--21462118 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
21462084 TCTTAAAAAC
21462094 AACTCAA
1 AACTCAA
21462101 AACTCAA
1 AACTCAA
21462108 AACTCAA
1 AACTCAA
21462115 AACT
1 AACT
21462119 TGTTTAAATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.56, C:0.28, G:0.00, T:0.16
Consensus pattern (7 bp):
AACTCAA
Found at i:21467349 original size:20 final size:20
Alignment explanation
Indices: 21467324--21467364 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
21467314 GCCTAAGGAG
21467324 TAAATGAATTATGTATATAA
1 TAAATGAATTATGTATATAA
21467344 TAAATGAATTATGTATATAA
1 TAAATGAATTATGTATATAA
21467364 T
1 T
21467365 GATAAATAAA
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:0.49, C:0.00, G:0.10, T:0.41
Consensus pattern (20 bp):
TAAATGAATTATGTATATAA
Found at i:21468917 original size:22 final size:22
Alignment explanation
Indices: 21468859--21468910 Score: 104
Period size: 22 Copynumber: 2.4 Consensus size: 22
21468849 GGCTCTGTTT
21468859 TCGCTGCATCAAGAATGCATTC
1 TCGCTGCATCAAGAATGCATTC
21468881 TCGCTGCATCAAGAATGCATTC
1 TCGCTGCATCAAGAATGCATTC
21468903 TCGCTGCA
1 TCGCTGCA
21468911 ACGAGAAACT
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 30 1.00
ACGTcount: A:0.25, C:0.29, G:0.19, T:0.27
Consensus pattern (22 bp):
TCGCTGCATCAAGAATGCATTC
Found at i:21475663 original size:118 final size:119
Alignment explanation
Indices: 21475451--21475674 Score: 353
Period size: 118 Copynumber: 1.9 Consensus size: 119
21475441 ACAAAAATTC
* * * *
21475451 AAAAAGGCCTTTCTACTCCTCACGACTTCCCTTCTTTCCTAACTCAAGTCTTTTTTTTTTATTTT
1 AAAAAGGCCTTTCAACTCCTCACGACTTCCCTTCCTTCCTAACCCAAG-CTTTTTTTATTATTTT
* *
21475516 TGCATGCCACATGTCACTTAATTGTGTGGCCACTTGTCAATTGTTGAAAAGGCCT
65 TACATGCCACATGTCACTTAATTGGGTGGCCACTTGTCAATTGTTGAAAAGGCCT
21475571 AAAAAGGCCTTTCAACTCCTCACTGACTTCCCTTCCTTCCTAACCCAAG-TTTTTTTATTA-TTT
1 AAAAAGGCCTTTCAACTCCTCAC-GACTTCCCTTCCTTCCTAACCCAAGCTTTTTTTATTATTTT
*
21475634 TACATGCCACATGTCACTTAGTTGGGTGGCCACTTGTCAAT
65 TACATGCCACATGTCACTTAATTGGGTGGCCACTTGTCAAT
21475675 CGTTAGGAAA
Statistics
Matches: 96, Mismatches: 7, Indels: 4
0.90 0.07 0.04
Matches are distributed among these distances:
118 41 0.43
119 10 0.10
120 22 0.23
121 23 0.24
ACGTcount: A:0.22, C:0.26, G:0.13, T:0.38
Consensus pattern (119 bp):
AAAAAGGCCTTTCAACTCCTCACGACTTCCCTTCCTTCCTAACCCAAGCTTTTTTTATTATTTTT
ACATGCCACATGTCACTTAATTGGGTGGCCACTTGTCAATTGTTGAAAAGGCCT
Found at i:21476686 original size:2 final size:2
Alignment explanation
Indices: 21476674--21476707 Score: 61
Period size: 2 Copynumber: 17.5 Consensus size: 2
21476664 ATTATAACAC
21476674 TA TA T- TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
21476708 TCATTTTTAC
Statistics
Matches: 31, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
1 1 0.03
2 30 0.97
ACGTcount: A:0.47, C:0.00, G:0.00, T:0.53
Consensus pattern (2 bp):
TA
Found at i:21477159 original size:24 final size:22
Alignment explanation
Indices: 21477121--21477164 Score: 70
Period size: 24 Copynumber: 1.9 Consensus size: 22
21477111 TAATTGTACA
21477121 TTAAAAAATTAATATTTTAAAT
1 TTAAAAAATTAATATTTTAAAT
21477143 TTAAAAATTATTAATATTTTAA
1 TTAAAAA--ATTAATATTTTAA
21477165 TGATAATAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
24 13 0.65
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (22 bp):
TTAAAAAATTAATATTTTAAAT
Found at i:21477223 original size:15 final size:14
Alignment explanation
Indices: 21477189--21477254 Score: 51
Period size: 16 Copynumber: 4.3 Consensus size: 14
21477179 AAATTATAAA
21477189 TAAAATATTATTATTT
1 TAAAATATTA--ATTT
21477205 TAAAATATTAATGTT
1 TAAAATATTAAT-TT
*
21477220 TAAATTATTAAATTAT
1 TAAAATATT-AATT-T
* *
21477236 TAATATTTTAAATTT
1 TAAAATATT-AATTT
21477251 TAAA
1 TAAA
21477255 TGAAAATATA
Statistics
Matches: 42, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
14 2 0.05
15 15 0.36
16 25 0.60
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (14 bp):
TAAAATATTAATTT
Found at i:21477236 original size:23 final size:23
Alignment explanation
Indices: 21477201--21477255 Score: 76
Period size: 23 Copynumber: 2.4 Consensus size: 23
21477191 AAATATTATT
*
21477201 ATTTTAAAATATTAAT-GTTTAA
1 ATTTTAAATTATTAATAGTTTAA
*
21477223 ATTATTAAATTATTAATATTTTAA
1 ATT-TTAAATTATTAATAGTTTAA
21477247 ATTTTAAAT
1 ATTTTAAAT
21477256 GAAAATATAA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
22 3 0.10
23 18 0.62
24 8 0.28
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (23 bp):
ATTTTAAATTATTAATAGTTTAA
Found at i:21477246 original size:16 final size:15
Alignment explanation
Indices: 21477201--21477255 Score: 60
Period size: 15 Copynumber: 3.6 Consensus size: 15
21477191 AAATATTATT
*
21477201 ATTTTAAAATATT-A
1 ATTTTAAATTATTAA
21477215 ATGTTTAAATTATTAA
1 AT-TTTAAATTATTAA
21477231 ATTATTAATATT-TTAA
1 ATT-TTAA-ATTATTAA
21477247 ATTTTAAAT
1 ATTTTAAAT
21477256 GAAAATATAA
Statistics
Matches: 36, Mismatches: 1, Indels: 8
0.80 0.02 0.18
Matches are distributed among these distances:
14 4 0.11
15 15 0.42
16 14 0.39
17 3 0.08
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (15 bp):
ATTTTAAATTATTAA
Found at i:21477247 original size:39 final size:40
Alignment explanation
Indices: 21477121--21477247 Score: 132
Period size: 39 Copynumber: 3.1 Consensus size: 40
21477111 TAATTGTACA
* * *
21477121 TTAAAAAATTAATATTTTAAATT-TAAAAATTATTAATATT
1 TTAAAATATTAAT-GTTTAAATTATATAAATTATTAATATT
* * * * *
21477161 TTAATGATAATAATGTTGAAATTATAAATAAAATATTATTATT
1 TTAA-AATATTAATGTTTAAATTAT--ATAAATTATTAATATT
21477204 TTAAAATATTAATGTTTAAATTAT-TAAATTATTAATATT
1 TTAAAATATTAATGTTTAAATTATATAAATTATTAATATT
21477243 TTAAA
1 TTAAA
21477248 TTTTAAATGA
Statistics
Matches: 70, Mismatches: 13, Indels: 9
0.76 0.14 0.10
Matches are distributed among these distances:
39 18 0.26
40 11 0.16
41 7 0.10
42 17 0.24
43 17 0.24
ACGTcount: A:0.50, C:0.00, G:0.03, T:0.47
Consensus pattern (40 bp):
TTAAAATATTAATGTTTAAATTATATAAATTATTAATATT
Found at i:21477272 original size:12 final size:12
Alignment explanation
Indices: 21477251--21477290 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
21477241 TTTTAAATTT
21477251 TAAATGAAAATA
1 TAAATGAAAATA
*
21477263 TAAATTAAAATA
1 TAAATGAAAATA
* *
21477275 AAAATGCAAATA
1 TAAATGAAAATA
21477287 TAAA
1 TAAA
21477291 AAGATAAAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.68, C:0.03, G:0.05, T:0.25
Consensus pattern (12 bp):
TAAATGAAAATA
Found at i:21477521 original size:22 final size:23
Alignment explanation
Indices: 21477495--21477554 Score: 72
Period size: 21 Copynumber: 2.7 Consensus size: 23
21477485 ACAAAACTAT
*
21477495 ATAAAAGATATTTTTAT-TTTTA
1 ATAAAAGATATTTTTATATTATA
*
21477517 ATAAAA-AAATTTTT-TATTATA
1 ATAAAAGATATTTTTATATTATA
*
21477538 ATAAAAGATAGTTTTAT
1 ATAAAAGATATTTTTAT
21477555 CATTTTATTA
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
20 1 0.03
21 17 0.55
22 12 0.39
23 1 0.03
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (23 bp):
ATAAAAGATATTTTTATATTATA
Found at i:21477530 original size:21 final size:22
Alignment explanation
Indices: 21477495--21477545 Score: 61
Period size: 22 Copynumber: 2.4 Consensus size: 22
21477485 ACAAAACTAT
* *
21477495 ATAAAAGATA-TTTTTATTTTTA
1 ATAAAAGAAATTTTTTA-TTATA
21477517 ATAAAA-AAATTTTTTATTATA
1 ATAAAAGAAATTTTTTATTATA
21477538 ATAAAAGA
1 ATAAAAGA
21477546 TAGTTTTATC
Statistics
Matches: 25, Mismatches: 2, Indels: 4
0.81 0.06 0.13
Matches are distributed among these distances:
21 12 0.48
22 13 0.52
ACGTcount: A:0.51, C:0.00, G:0.04, T:0.45
Consensus pattern (22 bp):
ATAAAAGAAATTTTTTATTATA
Found at i:21486724 original size:157 final size:155
Alignment explanation
Indices: 21486430--21486730 Score: 396
Period size: 157 Copynumber: 1.9 Consensus size: 155
21486420 ATCTATGTCT
* * * *
21486430 TTTAAGTCCTTTCATTGTCTCTGCCGTCTACCCCCAACTCCAAAATGCCATTACGTTTTCTTTCT
1 TTTAAATCCTTTAATTGTCTCTGCCGTCTACCCCCAACTCCAAAATGACATTACATTTTCTTTCT
* * * *
21486495 TTCTTTTTCTTTAATTCTTCTAATTTCTCATTGCAAAAGATTTCTTGACTTTTGAACTTGTTGAC
66 TTCTTATTCTTT-ATTC-TCTAATTTCTAATTGCAAAAGATTTCTAGACATTTGAACTTGTTGAC
21486560 GGAGAATTAAATTGATGAAATTTATCC
129 GGAGAATTAAATTGATGAAATTTATCC
*
21486587 TTTAAATCCTTTAATTGTCTCTGCCGTCTACCCCCAACTTCAAAATGACATTACATTTTCATTT-
1 TTTAAATCCTTTAATTGTCTCTGCCGTCTACCCCCAACTCCAAAATGACATTACATTTTC-TTTC
* *
21486651 TTT-TTATTCTTCT-TTC-C-AGTTTCTAATTGCAAAGGATTTCTAGACATTTGAACTTGTTGAC
65 TTTCTTATTCTT-TATTCTCTAATTTCTAATTGCAAAAGATTTCTAGACATTTGAACTTGTTGAC
* * * *
21486712 AGAGCATTGAATTGTTGAA
129 GGAGAATTAAATTGATGAA
21486731 TGTTCCTAGG
Statistics
Matches: 127, Mismatches: 15, Indels: 9
0.84 0.10 0.06
Matches are distributed among these distances:
152 54 0.43
153 1 0.01
155 3 0.02
156 7 0.06
157 59 0.46
158 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.11, T:0.43
Consensus pattern (155 bp):
TTTAAATCCTTTAATTGTCTCTGCCGTCTACCCCCAACTCCAAAATGACATTACATTTTCTTTCT
TTCTTATTCTTTATTCTCTAATTTCTAATTGCAAAAGATTTCTAGACATTTGAACTTGTTGACGG
AGAATTAAATTGATGAAATTTATCC
Found at i:21487120 original size:2 final size:2
Alignment explanation
Indices: 21487113--21487145 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
21487103 AATGGTCTTA
21487113 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC T
21487146 TATTCTAACT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:21493153 original size:112 final size:112
Alignment explanation
Indices: 21493012--21493574 Score: 901
Period size: 112 Copynumber: 5.0 Consensus size: 112
21493002 TTAAACTGAA
* *
21493012 ACTAAGATGATTGAGCATTTTTTGCTAAAATGATAATGTTTTGTTCATGCAGACCCATCAGTCTT
1 ACTAAGATGGTTGAGCATTTTTTGCTAAAATGATAATGTTTTATTCATGCAGACCCATCAGTCTT
21493077 ACAGAGATATGCAATCATGGGTAAGTACAAGAAATCCCAAGTCTGCT
66 ACAGAGATATGCAATCATGGGTAAGTACAAGAAATCCCAAGTCTGCT
*
21493124 ACTAAGATGGTTGAGCATTTTTTGCTAAAATGATAATGTTTTATTCATGCAGACCAATCAGTCTT
1 ACTAAGATGGTTGAGCATTTTTTGCTAAAATGATAATGTTTTATTCATGCAGACCCATCAGTCTT
* *
21493189 ACAGAGATGTGAAATCATGGGTAAGTACAAGAAATCCCAAGTCTGCT
66 ACAGAGATATGCAATCATGGGTAAGTACAAGAAATCCCAAGTCTGCT
* ** * *
21493236 ACTAAGATGGCTGAGTGTTGTTTGCTAAAATGATATTGTTTTATTCATGCAGACCCATCAGTCTT
1 ACTAAGATGGTTGAGCATTTTTTGCTAAAATGATAATGTTTTATTCATGCAGACCCATCAGTCTT
*
21493301 ACAGAGATATGCAATCATGGGTAAGTACAAGAAGTCCCAAGTCTGCT
66 ACAGAGATATGCAATCATGGGTAAGTACAAGAAATCCCAAGTCTGCT
* *
21493348 ACTAAGATCGTTGAGCATTTTTTGCTAAAATGATAATGTTTTATTCACGCAGACCCATCAGTCTT
1 ACTAAGATGGTTGAGCATTTTTTGCTAAAATGATAATGTTTTATTCATGCAGACCCATCAGTCTT
** * * *
21493413 ACAGAGATGCGCAATCATGGGTAAGTAAAAGAAGTCTCAAGTCTGCT
66 ACAGAGATATGCAATCATGGGTAAGTACAAGAAATCCCAAGTCTGCT
* ** * *
21493460 ACTAAAATCATTGAGCATTTTTTGCTAAAATGATAATGTTTTATACATGCAGACCCATCAGTCTC
1 ACTAAGATGGTTGAGCATTTTTTGCTAAAATGATAATGTTTTATTCATGCAGACCCATCAGTCTT
**
21493525 ACAGAGATACACAATCATGGGTAAGTACAAGAAATCCCAAGTCTGCT
66 ACAGAGATATGCAATCATGGGTAAGTACAAGAAATCCCAAGTCTGCT
21493572 ACT
1 ACT
21493575 CCTGGTCTGT
Statistics
Matches: 416, Mismatches: 35, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
112 416 1.00
ACGTcount: A:0.33, C:0.17, G:0.19, T:0.31
Consensus pattern (112 bp):
ACTAAGATGGTTGAGCATTTTTTGCTAAAATGATAATGTTTTATTCATGCAGACCCATCAGTCTT
ACAGAGATATGCAATCATGGGTAAGTACAAGAAATCCCAAGTCTGCT
Done.