Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168084.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_331, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 34294
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Found at i:1818 original size:26 final size:25
Alignment explanation
Indices: 1789--1840 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 25
1779 GTTGACTTAG
* *
1789 GCATACGGAGTTCATTCCTAGTCTAA
1 GCATACGAAGTTAATTCC-AGTCTAA
*
1815 GCATACGAAGTTAATTCCAGTGTAA
1 GCATACGAAGTTAATTCCAGTCTAA
1840 G
1 G
1841 ATCGGATCGG
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
25 7 0.30
26 16 0.70
ACGTcount: A:0.31, C:0.19, G:0.21, T:0.29
Consensus pattern (25 bp):
GCATACGAAGTTAATTCCAGTCTAA
Found at i:5181 original size:26 final size:26
Alignment explanation
Indices: 5145--5197 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
5135 GTTGACTTAG
5145 GCATACGGAGTTCATTCCCAGTCTAA
1 GCATACGGAGTTCATTCCCAGTCTAA
*
5171 GCATACGGAGTTCATTCCCAGTGTAA
1 GCATACGGAGTTCATTCCCAGTCTAA
5197 G
1 G
5198 ATCGGACCGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (26 bp):
GCATACGGAGTTCATTCCCAGTCTAA
Found at i:6073 original size:26 final size:26
Alignment explanation
Indices: 6043--6095 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
6033 GTTGGCTTGG
*
6043 GCATACGGAGTTCATTCCCAGTCTAA
1 GCATACAGAGTTCATTCCCAGTCTAA
*
6069 GCATACAGAGTTCATTCCCAGTGTAA
1 GCATACAGAGTTCATTCCCAGTCTAA
6095 G
1 G
6096 ATCAGACCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (26 bp):
GCATACAGAGTTCATTCCCAGTCTAA
Found at i:6149 original size:898 final size:894
Alignment explanation
Indices: 4291--6993 Score: 3865
Period size: 898 Copynumber: 3.0 Consensus size: 894
4281 GTTGACTTAG
** * *
4291 GCATACGGAGTTCATTCCCAGTGTAAGATTGGACCAGACCGAGGGTTACGGGTGGACATGCTGGG
1 GCATACGGAGTTCATTCCCAGTGTAAGATCAGACCAAACCGAGGGTTACGGGTGCACATGCTGGG
* * * *
4356 CTCAGGCATGTGCTGGTGCTGC-ATTTTTTTCG-CC-TGGC-CCA----C----CATCATCGGAG
66 CTCAGGCATGTGCTGGTGC-CCAATTTTTTTTGCCCAGGGCACCATCGCCGGAGCATCGTCGGAG
* * *
4409 ---C--ATCGTCGGCATTAGGGTTTCGACGATTGTGGGGCGGGGGGGTGTGCGCACATGATGTGC
130 AACCTGACCGACGGCATTGGGGTTTCGACGATTG-GGGGCGGGGGGGTGTGCGCACATGATGTGC
*
4469 GATGGGTGCTGGTACTTGGCCCTTATATTGGCCCCCTATCCCTCATCAAACCTTGAGAACTCACG
194 GATGGGTGCTGGTACTTGGCCCTTATATTGGCCCCCTATCCCTCATCAAACCTTGAGAACTCACA
*
4534 CCCCCTTAAAGAGCATTTGAGATTTTACAAGTTTGCTACCAGTAGCCATTAAAGTGTCTGAAATG
259 CCCCCTTAAAGAGCATTTGAGATTTTACAGGTTTGCTACCAGTAGCCATTAAAGTGTCTGAAATG
* * * * *
4599 GGGACACTTTTTTCAAATGGTCACAAAATCCTGTACAGTTTGACTTTTTAGCGGAATTGTTTTGT
324 GGGACACTTTTTTCAAATGGTCACAAAATCCTGTACACTTCGAGTTTTTAGCTGAATTTTTTTGT
** * * *
4664 GCATTACAAAAAAAATACAAGGATCACGTCTACCAAGTTTGGGGCCAAAACGTCTTCTGAAAAAA
389 GCATGCCAACAAAAATACAAGGATCATGTCTACCAAG-TTGGGGCCAAAACTTCTTCTGAAAAAA
* *
4729 TTTTAAAAAAATCCCAAACCGTAAAAAGTTTTAAAAA-CTGTGAAAAATAGAAAAC-AGGTCGTC
453 TTTTAAAAAAGTCCCAAACCGTAAAAAGTTTCAAAAATC-GTGAAAAATAGAAAACGA-GTCGTC
*
4792 TTGCCATGAAACTTCACATGAAGGCTTAAGGGACCATTGTATGAATTTACATGCCACAAAAATGG
516 TTGCCATGAAACTTCACATGAAGGCTTAAGGGACCATTGTATGAATTTACATGCCATAAAAATGG
* *
4857 CATTGGCATGGCAAAAATATGAAGATGTGCTTAAACCCACCTACCACCCTATCGATCCACGGCTT
581 CATTGGCATGGCAGAAATATGAAGATGTGCCTAAACCCACCTACCACCCTATCGATCCACGGCTT
* * * *
4922 GCGCATCCCGCCTCTCTCGTCGGCGTAGTGCCCGCCAGCCCGGCT-GTTTCGTCAGTTGGCTTAG
646 GCGCATCCCGCCTCTCTGGCCGGCGTAGTGCCCGCCAGTCC-GCTCGTTTCGTCGGTTGGCTTAG
** * **
4986 GCATACGGAGTTCATTCCCAGTCTAAGATCAGATCAGAATGAGGGTTGTAGTAGCAAGATTAGTA
710 GCATACGGAGTTCATTCCCAGTCTAAGATCAGATCAGACCGAGGGTTGCAGTAGCAAGATCGGTA
* * * * *
5051 GCACGTAGTGGGGGACCCGACCGATCCCCAGCTTGCGCATCCTACCCCTCTGGCTGGCCGAGCGC
775 GCACGTAGGGGGGGACCCGACTGATCCCCGGCTTGCGCATCCTACCCCTCTGGCCGGCTGAGCGC
*
5116 TCGCACACTCGTTTCGTGGGTTGACTTAGGCATACGGAGTTCATTCCCAGTCTAA
840 TCGCACGCTCGTTTCGTGGGTTGACTTAGGCATACGGAGTTCATTCCCAGTCTAA
* * *
5171 GCATACGGAGTTCATTCCCAGTGTAAGATCGGACCGAACCGAGGGTTGCGGGTGCACATGCTGGG
1 GCATACGGAGTTCATTCCCAGTGTAAGATCAGACCAAACCGAGGGTTACGGGTGCACATGCTGGG
* *
5236 CTCAGGCATGTGCTGGTGCCCAATTTTTTTT-CACTCGGGGCACCATCGTCGGAGCATCGTCGGA
66 CTCAGGCATGTGCTGGTGCCCAATTTTTTTTGC-C-CAGGGCACCATCGCCGGAGCATCGTCGGA
* *
5300 GAACCTGACCGACGGCATTGGGGTTCCGACGATTGGGCGGCGGGGGGGTGTGGGCACATGATGTG
129 GAACCTGACCGACGGCATTGGGGTTTCGACGATTGGG-GGCGGGGGGGTGTGCGCACATGATGTG
* * *
5365 CGTTGGGTGCTGGTACTTGGCCCTCATATTGGCCCCCTATCCCTCATCAGACCTTGAGAACTCAC
193 CGATGGGTGCTGGTACTTGGCCCTTATATTGGCCCCCTATCCCTCATCAAACCTTGAGAACTCAC
* *
5430 ACCCCCTTAAAAAGCATTTGAGATTTTACAGGTTTGCTGCCAGTAGCCATTAAAGTGTCTGAAAT
258 ACCCCCTTAAAGAGCATTTGAGATTTTACAGGTTTGCTACCAGTAGCCATTAAAGTGTCTGAAAT
* *
5495 GGCGACACTTTTTTTCAAATAGTCACAAAATCCTGTACACTTCGAGTTTTTAGCTGAATTTTTTT
323 GGGGACAC-TTTTTTCAAATGGTCACAAAATCCTGTACACTTCGAGTTTTTAGCTGAATTTTTTT
* * *
5560 GTGCATGCCAACAAAAATATAAGGATCATGTCTACCAAGCTTGCGGCCAAAACTTCTTCTGAGAA
387 GTGCATGCCAACAAAAATACAAGGATCATGTCTACCAAG-TTGGGGCCAAAACTTCTTCTGAAAA
* * *
5625 AATTTTAAAAAAGTCCCGAACCGTAAAAAGTTTCAAAAATCATGAATAATAGAAAACGAGTCGTC
451 AATTTTAAAAAAGTCCCAAACCGTAAAAAGTTTCAAAAATCGTGAAAAATAGAAAACGAGTCGTC
* *
5690 TTGCCATGAAACTTCACATGAATGCTTAAGGGACCATTGTATGAATTTACAAGCCATAAAAATGG
516 TTGCCATGAAACTTCACATGAAGGCTTAAGGGACCATTGTATGAATTTACATGCCATAAAAATGG
* * *
5755 CATTGGCATGGCAGAAATATGAAGATGTGCCTAAACCCACCAACCACCTTATCGATCCACGACTT
581 CATTGGCATGGCAGAAATATGAAGATGTGCCTAAACCCACCTACCACCCTATCGATCCACGGCTT
* * ** * *
5820 GCGCATCCTGTCTCTCTGGCCAACGTAGTGCCCGCCCGTCCGCTCGTTTTGTCGGTTGGCTTAGG
646 GCGCATCCCGCCTCTCTGGCCGGCGTAGTGCCCGCCAGTCCGCTCGTTTCGTCGGTTGGCTTAGG
* ** * * * * *
5885 CATATGGAGTTCATTCTGAGTTTAAGATCAGACCAGACCGAGGGTTGCGGTAGTAGGATCGGTAG
711 CATACGGAGTTCATTCCCAGTCTAAGATCAGATCAGACCGAGGGTTGCAGTAGCAAGATCGGTAG
* * * * * * *
5950 CATGAAGGGGGGGACCTGACTGATCCCCGGCTTGTGCATCCTGCCCCTCTGGCCGGTTGAGCGCC
776 CACGTAGGGGGGGACCCGACTGATCCCCGGCTTGCGCATCCTACCCCTCTGGCCGGCTGAGCGCT
* * * *
6015 CACACGCTCGTTTCATGGGTTGGCTTGGGCATACGGAGTTCATTCCCAGTCTAA
841 CGCACGCTCGTTTCGTGGGTTGACTTAGGCATACGGAGTTCATTCCCAGTCTAA
* * *
6069 GCATACAGAGTTCATTCCCAGTGTAAGATCAGACCAAATCGATGGTTACGGGTGCACATGCTGGG
1 GCATACGGAGTTCATTCCCAGTGTAAGATCAGACCAAACCGAGGGTTACGGGTGCACATGCTGGG
**
6134 CTC-GAGCATGTGCTGGTGCCGTATTTTTTTTGCCCAGGGCACCATCGCCGGAGCATCGTCGGAG
66 CTCAG-GCATGTGCTGGTGCCCAATTTTTTTTGCCCAGGGCACCATCGCCGGAGCATCGTCGGAG
*
6198 AACCTGACCGATGGCATTGGGGTTTC-AGCGACTGTGGGGGC-GGGGGGTGTGCGCACATGATGT
130 AACCTGACCGACGGCATTGGGGTTTCGA-CGA-T-TGGGGGCGGGGGGGTGTGCGCACATGATGT
* * *
6261 GCGATGCGTGCTGGTACTTGGCCCTTATATTGGCCCCCTCTCCCTCATCAAACCTTGAGAACACA
192 GCGATGGGTGCTGGTACTTGGCCCTTATATTGGCCCCCTATCCCTCATCAAACCTTGAGAACTCA
* *
6326 CACCCCCTTAAAGAGCATTTTAGATTTTACAGGTTTGCTACCAGTTGCCATTAAAGTGTCTGAAA
257 CACCCCCTTAAAGAGCATTTGAGATTTTACAGGTTTGCTACCAGTAGCCATTAAAGTGTCTGAAA
*
6391 TGGGGACACTTTTTTCAAATGGTCACAAAATCCTGTACACTTCGAGTTTTTAGCTAAATTTTTTT
322 TGGGGACACTTTTTTCAAATGGTCACAAAATCCTGTACACTTCGAGTTTTTAGCTGAATTTTTTT
* *
6456 GTGCATGCCAACAAAAATACAAGGATCATGTCTACCAAGTGTGGGGCCAAAACTCCTTCTAAAAA
387 GTGCATGCCAACAAAAATACAAGGATCATGTCTACCAAGT-TGGGGCCAAAACTTCTTCTGAAAA
* * *
6521 AATTTAAAAAAAGTCTCAAACCGTAAAAAGTTTCAAAAATCGTGAAAAATAAAAAACGAGTCGTC
451 AATTTTAAAAAAGTCCCAAACCGTAAAAAGTTTCAAAAATCGTGAAAAATAGAAAACGAGTCGTC
* *
6586 TTGCCATGAAACTTCACACGAAGGCTTAAGGGACCATTGTTTGAATTTACATGCCATAAAAATGG
516 TTGCCATGAAACTTCACATGAAGGCTTAAGGGACCATTGTATGAATTTACATGCCATAAAAATGG
* *
6651 CATTGGCACGGTAGAAATATGAAGATGTGCCTAAACCCACCTACCACCCTATCGATCCACGGCTT
581 CATTGGCATGGCAGAAATATGAAGATGTGCCTAAACCCACCTACCACCCTATCGATCCACGGCTT
* * *
6716 GCGCATCCCGCCTCTCTGGCCGGCGTAGTGCCCGCCTGTCGGCTCGTTTCGTCGGTTCGCTTAGG
646 GCGCATCCCGCCTCTCTGGCCGGCGTAGTGCCCGCCAGTCCGCTCGTTTCGTCGGTTGGCTTAGG
* * * * * * **
6781 CATACGGAGTTCATTCCCAGTCTAAAATCGGATCAAACCAAGGGTTGCAGTAGCATGACCGACAG
711 CATACGGAGTTCATTCCCAGTCTAAGATCAGATCAGACCGAGGGTTGCAGTAGCAAGATCGGTAG
* ** * *
6846 CACGTA-GGGGGGACCCG-GTCGATCCTTGGCTTACGCATCCTACTCCTCTGGCCGGCTGAGCGC
776 CACGTAGGGGGGGACCCGACT-GATCCCCGGCTTGCGCATCCTACCCCTCTGGCCGGCTGAGCGC
* * *
6909 TCGCACGCTCATTTCGTGGGTTGACTTAGGCATTCAGAGTTCATTCCCAGTCTAA
840 TCGCACGCTCGTTTCGTGGGTTGACTTAGGCATACGGAGTTCATTCCCAGTCTAA
*
6964 GCATACGGAGTTCATTCCCAGCGTAAGATC
1 GCATACGGAGTTCATTCCCAGTGTAAGATC
6994 GACGTAACAT
Statistics
Matches: 1612, Mismatches: 180, Indels: 47
0.88 0.10 0.03
Matches are distributed among these distances:
879 1 0.00
880 87 0.05
881 1 0.00
882 1 0.00
883 3 0.00
884 3 0.00
888 1 0.00
892 10 0.01
894 1 0.00
895 123 0.08
896 406 0.25
897 388 0.24
898 580 0.36
899 7 0.00
ACGTcount: A:0.25, C:0.24, G:0.24, T:0.26
Consensus pattern (894 bp):
GCATACGGAGTTCATTCCCAGTGTAAGATCAGACCAAACCGAGGGTTACGGGTGCACATGCTGGG
CTCAGGCATGTGCTGGTGCCCAATTTTTTTTGCCCAGGGCACCATCGCCGGAGCATCGTCGGAGA
ACCTGACCGACGGCATTGGGGTTTCGACGATTGGGGGCGGGGGGGTGTGCGCACATGATGTGCGA
TGGGTGCTGGTACTTGGCCCTTATATTGGCCCCCTATCCCTCATCAAACCTTGAGAACTCACACC
CCCTTAAAGAGCATTTGAGATTTTACAGGTTTGCTACCAGTAGCCATTAAAGTGTCTGAAATGGG
GACACTTTTTTCAAATGGTCACAAAATCCTGTACACTTCGAGTTTTTAGCTGAATTTTTTTGTGC
ATGCCAACAAAAATACAAGGATCATGTCTACCAAGTTGGGGCCAAAACTTCTTCTGAAAAAATTT
TAAAAAAGTCCCAAACCGTAAAAAGTTTCAAAAATCGTGAAAAATAGAAAACGAGTCGTCTTGCC
ATGAAACTTCACATGAAGGCTTAAGGGACCATTGTATGAATTTACATGCCATAAAAATGGCATTG
GCATGGCAGAAATATGAAGATGTGCCTAAACCCACCTACCACCCTATCGATCCACGGCTTGCGCA
TCCCGCCTCTCTGGCCGGCGTAGTGCCCGCCAGTCCGCTCGTTTCGTCGGTTGGCTTAGGCATAC
GGAGTTCATTCCCAGTCTAAGATCAGATCAGACCGAGGGTTGCAGTAGCAAGATCGGTAGCACGT
AGGGGGGGACCCGACTGATCCCCGGCTTGCGCATCCTACCCCTCTGGCCGGCTGAGCGCTCGCAC
GCTCGTTTCGTGGGTTGACTTAGGCATACGGAGTTCATTCCCAGTCTAA
Found at i:7710 original size:759 final size:756
Alignment explanation
Indices: 6248--7753 Score: 2264
Period size: 759 Copynumber: 2.0 Consensus size: 756
6238 CGGGGGGTGT
* *
6248 GCGCACATGATGTGCGATGCGTGCTGGTACTTGGCCCTTATATTGGCCCCCTCTCCCTCATCAAA
1 GCGCACATAATGTGCGATGCGTGCTGGTACTTGGCCCTTATATTGGCCCCCTATCCCTCATCAAA
** * * *
6313 CCTTGAGAACACACACCCCCTTAAAGAGCATTTTAGATTTTACAGGTTTGCTACCAGTTGCCATT
66 CCTCAAGAACACACACCCCCTTAAAGAGCATTTGAGATGTTACAGGTTTGCTACCAGTAGCCATT
6378 AAAGTGTCTGAAATGGGGACACTTTTTTCAAATGGTCACAAAATCCTGTACACTTCGAGTTTTTA
131 AAAGTGTCTGAAATGGGGACACTTTTTTCAAATGGTCACAAAATCCTGTACACTTCGAGTTTTTA
* * *
6443 GCTAAATTTTTTTGTGCATGCCAACAAAAATACAAGGATCATGTCTACCAAGTGTGGGGCCAAAA
196 GCTAAATTTTTTTGCGCATGCCAACAAAAATACAAAGATCACGTCTACCAAGTGTGGGGCCAAAA
* * *
6508 CTCCTTCTAAAAAAATTTAAAAAAAGTCTCAAACCGTAAAAAGTTTCAAAAATCGTGAAAAATAA
261 CTCCTTCTAAAAAAATTTAAAAAAAATCCCAAACCGTAAAAAGTTTCAAAAATCATGAAAAATAA
* * * * *
6573 AAAACGAGTCGTCTTGCCATGAAACTTCACACGAAGGCTTAAGGGACCATTGTTTGAATTTACAT
326 AAAACGAGTCGTCGTGCCATGAAACTTCACACGAAGGCTTAAGGGACCATGGTATGAATGTACAA
*
6638 GCCATAAAAATGGCATTGGCACGGTAGAAATATGAAGATGTGCCTAAACCCACCTACCACCCTAT
391 GCCATAAAAATGGCATTGGCACGGAAGAAATATGAAGATGTGCCTAAACCCACCTACCACCCTAT
* * * * * *
6703 CGATCCACGGCTTGCGCATCCCGCCTCTCTGGCCGGCGTAGTGCCCGCCTGTCGGCTCGTTTCGT
456 CGATCCACGACTTACGCATCCCGCCTCTCTGGCCGGCGTAGTGCCCGCCCGCCCGCTCGTTTCAT
* * *
6768 CGGTTCGCTTAGGCATACGGAGTTCATTCCCAGTCTAAAATCGGATCAAACCAAGGGTTGCAGTA
521 CGGTTCGCTTAGGCATACGAAGTTCATTCCCAGTCTAAAATCAGACCAAACCAAGGGTTGCAGTA
* * * *** * *
6833 GCATGACCGACAGCACGTAGGGGGGACCCGGTCGATCCTTGGCTTACGCATCCTACTCCTCTGGC
586 G-A-GACCGACAACACGCAGGGGGGACCAGGTCGATCCCCAGCATACGCATCCTACCCCTCTGGC
* * *
6898 CGGCTGAGCGCTCGCACGCTCATTTCGTGGGTTGACTTAGGCATTCAGAGTTCATTCCCAGTCTA
649 CAGCTGAGCGCCCGCACGCTCATTTCGTGGGTTGACTTAGGCATACAGAGTTCATTCCCAGTCTA
6963 AGCATACGGAGTTCATTCCCAGCGTAAGATCGACGTAACATCA
714 AGCATACGGAGTTCATTCCCAGCGTAAGATCGACGTAACATCA
* * * *
7006 GCGCACATAATGTGTGATGGGTGCTGGTACTTGGCCCTTATATTGGTCCCCTATCCCTTATCAAA
1 GCGCACATAATGTGCGATGCGTGCTGGTACTTGGCCCTTATATTGGCCCCCTATCCCTCATCAAA
* *
7071 CCTCAAGAACTCACACCCCCCTTAAAGAGCATTTGAGATGTTACAGGTTTGCTTCCAGTAGCCAT
66 CCTCAAGAACACACA-CCCCCTTAAAGAGCATTTGAGATGTTACAGGTTTGCTACCAGTAGCCAT
*
7136 TAAAGTGTCTGAAAT-GGGACACTTTTTTCAAATGGTCACAAAATCCTGTACATTTCGAGTTTTT
130 TAAAGTGTCTGAAATGGGGACACTTTTTTCAAATGGTCACAAAATCCTGTACACTTCGAGTTTTT
* *
7200 AGCTGAATTTTTTTGCGCATGCCAACAAAAATACAAAGATCACGTCTACCAAGTTTGGGGCCAAA
195 AGCTAAATTTTTTTGCGCATGCCAACAAAAATACAAAGATCACGTCTACCAAGTGTGGGGCCAAA
* * **
7265 ACTCCTTCTGAAAAAATTTTAAAAAAAATCCCGAATTGTAAAAAGTTTCAAAAATCATGAAAAAT
260 ACTCCTTCT-AAAAAAATTTAAAAAAAATCCCAAACCGTAAAAAGTTTCAAAAATCATGAAAAAT
* *
7330 AGAAAACGAGTCGTCGTGCCATGAAACTTCACATGAAGGCTTAAGGGACCATGGTATGAATGTAC
324 AAAAAACGAGTCGTCGTGCCATGAAACTTCACACGAAGGCTTAAGGGACCATGGTATGAATGTAC
* * *
7395 AAGCCATAAAAATGGCATTGGCATGGAAGAAATATGAAGATGTGCCTAAACTCACCTACCAGCCT
389 AAGCCATAAAAATGGCATTGGCACGGAAGAAATATGAAGATGTGCCTAAACCCACCTACCACCCT
* *
7460 ATCGATCCATGACTTACGCATCTCGCCTCTCTGGCCGGCGTAGTGCCCGCCCGCCCGCTCGTTTC
454 ATCGATCCACGACTTACGCATCCCGCCTCTCTGGCCGGCGTAGTGCCCGCCCGCCCGCTCGTTTC
* * * * *
7525 ATCGGTTGGCTTAGGCATACGAAGTTCATTCCCAGTCTAAGATCAGACCAGATCGAGGGTTGGGA
519 ATCGGTTCGCTTAGGCATACGAAGTTCATTCCCAGTCTAAAATCAGACCAAACCAAGGGTT--G-
* * *
7590 CAGTAG-GATCGACAACATC-CAGGGGGGACCAGG-CTGATCCCCAGCATGCGCATCCTGCCCCT
581 CAGTAGAGACCGACAACA-CGCAGGGGGGACCAGGTC-GATCCCCAGCATACGCATCCTACCCCT
* *
7652 CTGGCCAGCTGAGCGCCCGCATGCTCATTTCGTGGGTTGACTTAGGCATACGGAGTTCATTCCCA
644 CTGGCCAGCTGAGCGCCCGCACGCTCATTTCGTGGGTTGACTTAGGCATACAGAGTTCATTCCCA
* *
7717 GTCTAAGCATATGGAGTTCATTCCCAGTGTAAGATCG
709 GTCTAAGCATACGGAGTTCATTCCCAGCGTAAGATCG
7754 GATCAGATCG
Statistics
Matches: 670, Mismatches: 71, Indels: 13
0.89 0.09 0.02
Matches are distributed among these distances:
758 189 0.28
759 473 0.71
760 1 0.00
761 1 0.00
762 6 0.01
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (756 bp):
GCGCACATAATGTGCGATGCGTGCTGGTACTTGGCCCTTATATTGGCCCCCTATCCCTCATCAAA
CCTCAAGAACACACACCCCCTTAAAGAGCATTTGAGATGTTACAGGTTTGCTACCAGTAGCCATT
AAAGTGTCTGAAATGGGGACACTTTTTTCAAATGGTCACAAAATCCTGTACACTTCGAGTTTTTA
GCTAAATTTTTTTGCGCATGCCAACAAAAATACAAAGATCACGTCTACCAAGTGTGGGGCCAAAA
CTCCTTCTAAAAAAATTTAAAAAAAATCCCAAACCGTAAAAAGTTTCAAAAATCATGAAAAATAA
AAAACGAGTCGTCGTGCCATGAAACTTCACACGAAGGCTTAAGGGACCATGGTATGAATGTACAA
GCCATAAAAATGGCATTGGCACGGAAGAAATATGAAGATGTGCCTAAACCCACCTACCACCCTAT
CGATCCACGACTTACGCATCCCGCCTCTCTGGCCGGCGTAGTGCCCGCCCGCCCGCTCGTTTCAT
CGGTTCGCTTAGGCATACGAAGTTCATTCCCAGTCTAAAATCAGACCAAACCAAGGGTTGCAGTA
GAGACCGACAACACGCAGGGGGGACCAGGTCGATCCCCAGCATACGCATCCTACCCCTCTGGCCA
GCTGAGCGCCCGCACGCTCATTTCGTGGGTTGACTTAGGCATACAGAGTTCATTCCCAGTCTAAG
CATACGGAGTTCATTCCCAGCGTAAGATCGACGTAACATCA
Found at i:7726 original size:26 final size:26
Alignment explanation
Indices: 7697--7749 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
7687 GTTGACTTAG
7697 GCATACGGAGTTCATTCCCAGTCTAA
1 GCATACGGAGTTCATTCCCAGTCTAA
* *
7723 GCATATGGAGTTCATTCCCAGTGTAA
1 GCATACGGAGTTCATTCCCAGTCTAA
7749 G
1 G
7750 ATCGGATCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (26 bp):
GCATACGGAGTTCATTCCCAGTCTAA
Found at i:14344 original size:26 final size:26
Alignment explanation
Indices: 14308--14360 Score: 97
Period size: 26 Copynumber: 2.0 Consensus size: 26
14298 GGTTAACTTG
14308 GCATACGGAGTTCATTCCCAGTCTAA
1 GCATACGGAGTTCATTCCCAGTCTAA
*
14334 GCATACGGAGTTCATTCCCAGTGTAA
1 GCATACGGAGTTCATTCCCAGTCTAA
14360 G
1 G
14361 ATCGGACCGG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.26, C:0.25, G:0.23, T:0.26
Consensus pattern (26 bp):
GCATACGGAGTTCATTCCCAGTCTAA
Found at i:15278 original size:26 final size:26
Alignment explanation
Indices: 15203--15278 Score: 143
Period size: 26 Copynumber: 2.9 Consensus size: 26
15193 TGAGTTGACT
*
15203 TAAGCATACGGAGTTCATTCCCAATC
1 TAAGCATACGGAGTTCATTCCCAGTC
15229 TAAGCATACGGAGTTCATTCCCAGTC
1 TAAGCATACGGAGTTCATTCCCAGTC
15255 TAAGCATACGGAGTTCATTCCCAG
1 TAAGCATACGGAGTTCATTCCCAG
15279 AGTAAGATCG
Statistics
Matches: 49, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
26 49 1.00
ACGTcount: A:0.29, C:0.26, G:0.18, T:0.26
Consensus pattern (26 bp):
TAAGCATACGGAGTTCATTCCCAGTC
Found at i:16705 original size:26 final size:26
Alignment explanation
Indices: 16676--16728 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
16666 GTTGACTTAG
16676 GCATACGGAGTTCACTCCCAGTCTAA
1 GCATACGGAGTTCACTCCCAGTCTAA
* *
16702 GCATACGGAGTTCATTCCCAGTGTAA
1 GCATACGGAGTTCACTCCCAGTCTAA
16728 G
1 G
16729 ATCGGATCGG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (26 bp):
GCATACGGAGTTCACTCCCAGTCTAA
Found at i:16722 original size:285 final size:280
Alignment explanation
Indices: 16010--16836 Score: 976
Period size: 285 Copynumber: 3.0 Consensus size: 280
16000 GAAGGTTGCA
* * *
16010 GCAGTAGGATTGGCAGCACACAGGGGGTACCCGATCGATCC-CTGGCTT-TCGCATCCTGCCCCT
1 GCAGTAGGATCGGCAGCACGCAGGGGGGACCCGATCGATCCTC-GGCTTGT-GCATCCTGCCCCT
* * * * * *
16073 CTGGCCTG-TTGAGCACACGCACGCTCGTTTCATGGGATGACTTAGGCATACGGAGTTCATTACC
64 CTAGCC-GACTGAGCGCCCGCACGCTCGTTTCATGGGTTGACTTAGGCATACGGAGTTCATTCCC
* * * * *
16137 AGTCTAAGTATGCAGAGTTCATTCCCAGTGTAAGATCGGACCGGACCAAGGGTTA-CGAATGCAC
128 AGTCTAAGTATACGGAGTTCATTCCCAGTGTAAGATCGGATCGGACCGAGGGTTACCG-GTGCAC
* * ****
16201 ATGTTGGGATCGGGCATGTGCTGGTGCCACATTTTTTTTCGGTTGGGGCACCATCGTCGGAG-A-
192 ATGCTGGGCTCGGGCATGTGCTGGTGCCACATTTTTTTTCGCCCAGGGCACCATCGTCGGAGCAT
* *
16264 CCC--TG-ACC-GGCGACATTGTG
257 CCCGGAGAACCTGCCGACATTGTG
* * * * **
16284 GCAGCAGGATCGACAACACGCA-GGGGGACCCGACCGATCCTCGGCTTGCACATCCTGCCCCTC-
1 GCAGTAGGATCGGCAGCACGCAGGGGGGACCCGATCGATCCTCGGCTTGTGCATCCTGCCCCTCT
* * * ** * * * *
16347 AGGTCGACCGAGTGCCCATATGCTCATTTCGTGGGTTGACTTAGGCATACGAAGTTCATTCCCAG
66 A-GCCGACTGAGCGCCCGCACGCTCGTTTCATGGGTTGACTTAGGCATACGGAGTTCATTCCCAG
* *
16412 TCTACGTGTACGGAGTTCATTCCCAGTGTAAGATCGGATCGGACCGAGGGTTACCGGTGCACATG
130 TCTAAGTATACGGAGTTCATTCCCAGTGTAAGATCGGATCGGACCGAGGGTTACCGGTGCACATG
* *
16477 CTGGGCTCGGGCATGTGCTGGTGCCATATTTTTTTTTGCCCAGGGCACCATCGTCGGAGCATCAC
195 CTGGGCTCGGGCATGTGCTGGTGCCACATTTTTTTTCGCCCAGGGCACCATCGTCGGAGCATC-C
16542 CGGAGAACCTGACCGATAGCATTGTG
259 CGGAGAACCTG-CCG--A-CATTGTG
* *
16568 GCAGTAGGATCGGCAGCACGCAGGGGGGACCCGATCGATCCTCAGCTTGTGCATCCTACCCCTCT
1 GCAGTAGGATCGGCAGCACGCAGGGGGGACCCGATCGATCCTCGGCTTGTGCATCCTGCCCCTCT
* * *
16633 AGCCGACTAAGCGCCCGCACGCTCGTTTCATTGGTTGACTTAGGCATACGGAGTTCACTCCCAGT
66 AGCCGACTGAGCGCCCGCACGCTCGTTTCATGGGTTGACTTAGGCATACGGAGTTCATTCCCAGT
* * * *
16698 CTAAGCATACGGAGTTCATTCCCAGTGTAAGATCGGATCGGATCGAGGGTTGCGGGTGCACATGC
131 CTAAGTATACGGAGTTCATTCCCAGTGTAAGATCGGATCGGACCGAGGGTTACCGGTGCACATGC
* * * * *
16763 TGGGCTCGGGCATGTGCTTGTGCTACATTTGTTTTCGCCCAAGGCACCATCGTCGGAGCATCGTC
196 TGGGCTCGGGCATGTGCTGGTGCCACATTTTTTTTCGCCCAGGGCACCATCGTCGGAGCATC-CC
16828 GGAGAACCT
260 GGAGAACCT
16837 AACCAACGGC
Statistics
Matches: 460, Mismatches: 75, Indels: 25
0.82 0.13 0.04
Matches are distributed among these distances:
272 1 0.00
273 187 0.41
274 21 0.05
275 1 0.00
276 2 0.00
278 1 0.00
279 3 0.01
280 1 0.00
281 2 0.00
283 1 0.00
284 26 0.06
285 213 0.46
286 1 0.00
ACGTcount: A:0.20, C:0.27, G:0.29, T:0.24
Consensus pattern (280 bp):
GCAGTAGGATCGGCAGCACGCAGGGGGGACCCGATCGATCCTCGGCTTGTGCATCCTGCCCCTCT
AGCCGACTGAGCGCCCGCACGCTCGTTTCATGGGTTGACTTAGGCATACGGAGTTCATTCCCAGT
CTAAGTATACGGAGTTCATTCCCAGTGTAAGATCGGATCGGACCGAGGGTTACCGGTGCACATGC
TGGGCTCGGGCATGTGCTGGTGCCACATTTTTTTTCGCCCAGGGCACCATCGTCGGAGCATCCCG
GAGAACCTGCCGACATTGTG
Found at i:18474 original size:26 final size:26
Alignment explanation
Indices: 18445--18497 Score: 70
Period size: 26 Copynumber: 2.0 Consensus size: 26
18435 GTTGACTTAG
*
18445 GCATACGGATTTCATTCCCAGTATAA
1 GCATACGGAGTTCATTCCCAGTATAA
* * *
18471 GCATATGGAGTTCATTCCTAGTGTAA
1 GCATACGGAGTTCATTCCCAGTATAA
18497 G
1 G
18498 ATCAGAATGG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
26 23 1.00
ACGTcount: A:0.28, C:0.19, G:0.21, T:0.32
Consensus pattern (26 bp):
GCATACGGAGTTCATTCCCAGTATAA
Found at i:21153 original size:896 final size:894
Alignment explanation
Indices: 17576--23567 Score: 7906
Period size: 896 Copynumber: 6.7 Consensus size: 894
17566 GTTGACTTAG
* ** *** *
17576 GCATACGGAGTTCATTCCCAGTGTCAGATCAGACTGGGTTGAGGGTT-CTGGGTGCACATGCTAG
1 GCATACGGAGTTCATTCCCAGTGTAAGATCAGACCAGACCGAGGGTTAC-GGGTGCACATGCTGG
* ** * * * * *
17640 GCTCGGGCATGTGCTGGTGTCGTATTATTTTTCGCCCGGGGCACTATCGTCGGAGCATCACCAGA
65 GCTCGGGCATGTGCTGGTGCCACATTTTTTTTCGCCCGGGGCACCATCGCCGGAGCATC-GCGGA
* * * * * *
17705 GAACCTGACTGACGGCATTGGGGTTTCGACGATTAGGGGGGCGAGGGGGTGTGCGCAAATGATGT
129 GAACCTGACCGGCGGCATTGGGGTTCCGGCGATTGGGGGGGCG-GGGGGTGTGCGCACATGATGT
*
17770 GCGATGGGTGCTGGTACTTGGCCCTTATATTGGCCCCCTATCCCTCATCAAACCTCGACAACTCA
193 GCGATGGGTGCTGGTACTTGGCCCTTATATTGGCCCCCTATCCCTCATCAAACCTCGAGAACTCA
*
17835 CTCCCCCTTAAAGAGCATTTGAGATTTTACAGGTTTGCTGCCAGTAGCCATTAAAGTGTCTGAAA
258 CACCCCCTTAAAGAGCATTTGAGATTTTACAGGTTTGCTGCCAGTAGCCATTAAAGTGTCTGAAA
* * *
17900 TGGGGAAACTTTTTTCAAATGGTCACAAAATCCTATACACTTCGAGTTTTTAGCTGAATGTTTTT
323 TGGGGACACTTTTTTCAAATGGTCACAAAATCCTGTACACTTCGAGTTTTTAGCTGAATTTTTTT
* *
17965 GTGCATGCCAAAAAAAAATACAAGGATCACGTCTACCAAGTGTGGGGCCAAAACTCCTTTTGAAA
388 GTGCATGCC-AAAAAAAATACAAGGATCACGTCTACCAAGTTTGGGGCCAAAACTCCTTCTGAAA
* * * * *
18030 AAAATTTAAAAAAATCCCGAACCGTAAAAAGTTTTAAAAATTGTGAAAAATAGAAAACAAGTCAT
452 AAATTTTAAAAAAATCCCGAACCGTAAAAAGTTTCAAAAATCGTGAAAAATAGAAAACGAGTCGT
*
18095 CTTGCCATGAAACTTCACATGGAGGCTTAAGGGACCATTGTATGAATTTACAAGCCATAAAAATG
517 CTTGCCATGAAACTTCACATGAAGGCTTAAGGGACCATTGTATGAATTTACAAGCCATAAAAATG
*
18160 GCATTGGCATGGCAAAAATATGAAGATGTGCCTAAACCCACCTACCACCCTATCGATCCACGGCT
582 GCATTGGCATGGCAGAAATATGAAGATGTGCCTAAACCCACCTACCACCCTATCGATCCACGGCT
* * *
18225 TGCGCATCCCGCCTCTCTGGCCGACGTAGT----GCCCGCCCGCTCGTTTCGTTGATTGGATTAG
647 TGCGCATCCCGCCTCTCTGGCCGACGTAGTGCCCGCCCGCCCGCTCGTTTCGTCGGTTGGCTTAG
* * * * * * *
18286 GCATACGGAGTTCATTCCCAATCTAAGATCAAACCAGATTAAGTGG-TATGGTAGCAGGATCAGC
712 GCATACGGAGTTCATTCCCAGTCTAAGATTAGACCAGACTGAG-GGTTGTGGTAGCAGGATCGGC
* * * *
18350 AGCACATAAGGGGGGATCCGATCGATCCCTGGCTTGCGCATCCTGCCCCTCTGGCCGGTTGAGCA
776 AGCACGT-AGGGGGGACCCGATCGATCCC-GGCTTGCGCATCCTGCCCCTCTGGCCGGCTGAGCG
* * *
18415 CCCGCACACTCGTTTCGTGGGTTGACTTAGGCATACGGATTTCATTCCCAGTATAA
839 CCCGCACGCTCGTTTCGTGGGTTGACTTAGGCATACGGAGTTCATTCCCAGTCTAA
* * ***
18471 GCATATGGAGTTCATTCCTAGTGTAAGATCAGAATGGACCGAGGGTTGA-GGGTGCACATGCTGG
1 GCATACGGAGTTCATTCCCAGTGTAAGATCAGACCAGACCGAGGGTT-ACGGGTGCACATGCTGG
* * * * * *
18535 GCTCGGGCATGTGCTAGTGCCGCATTTTTTTTCACCCGGGGCACCTTCGCCGGAGCATCACCGAA
65 GCTCGGGCATGTGCTGGTGCCACATTTTTTTTCGCCCGGGGCACCATCGCCGGAGCATC-GCGGA
* ** * * * *
18600 GAACCTAACCGATGGCATTAGGGTTCCGGCAATTGGGGGGGTGGGGGGGTGTACGCACATGATGT
129 GAACCTGACCGGCGGCATTGGGGTTCCGGCGATTGGGGGGG-CGGGGGGTGTGCGCACATGATGT
* * *
18665 GTGATGGGTGCTGGTACTTGGCCCTTATATTGGCCCCCTATCCCTCAACAAACCTTGAGAACTCA
193 GCGATGGGTGCTGGTACTTGGCCCTTATATTGGCCCCCTATCCCTCATCAAACCTCGAGAACTCA
* * * * *
18730 CACCTCCTTAAAAAGAATTTGAGATTTTACAGGTTTGCTGGCAGTAGCCATTAAAGTGTTTGAAA
258 CACCCCCTTAAAGAGCATTTGAGATTTTACAGGTTTGCTGCCAGTAGCCATTAAAGTGTCTGAAA
18795 TGGGGACACTTTTTTCAAATGGTCACAAAATCCTGTACACTTCGAGTTTTTAGCTGAATTTTTTT
323 TGGGGACACTTTTTTCAAATGGTCACAAAATCCTGTACACTTCGAGTTTTTAGCTGAATTTTTTT
* * *
18860 GTGCATGCCAAAAAAAATACAAGGATCATGTCTACCAAGTGTGGGGCCAAAACTTCTTCTGAAAA
388 GTGCATGCCAAAAAAAATACAAGGATCACGTCTACCAAGTTTGGGGCCAAAACTCCTTCTGAAAA
* * *
18925 AATTTTAAAAAAATCTCGAATCGTAAAAAGTTTCAAAAATCGTGAAAAATAGAAAAGGAGTCGTC
453 AATTTTAAAAAAATCCCGAACCGTAAAAAGTTTCAAAAATCGTGAAAAATAGAAAACGAGTCGTC
* * *
18990 TTGCCATGAAGCTTCACATGAAGGCTTAAGGGACCATGGTATGAATTTAAAAGCCATAAAAATGG
518 TTGCCATGAAACTTCACATGAAGGCTTAAGGGACCATTGTATGAATTTACAAGCCATAAAAATGG
*
19055 CATTGGCATGGCAGAAATATGAAGATGTGCCTGAACCCACCTACCACCCTATCGATCCACGGCTT
583 CATTGGCATGGCAGAAATATGAAGATGTGCCTAAACCCACCTACCACCCTATCGATCCACGGCTT
* * * **
19120 GCGCATCCCGCCTCTCTGGCCGACGTAGTGCCCGTCGGCCCGCCCACCCTTTTCGTTAGTTGGCT
648 GCGCATCCCGCCTCTCTGGCCGACGTAGTG-CC--C-GCCCGCCCGCTCGTTTCGTCGGTTGGCT
* *
19185 TAGGCATACGGAGTTCATTCCCAGTCTAAGATTAGACCAAACTGAGGGTTGTGGTAGCAGGATTG
709 TAGGCATACGGAGTTCATTCCCAGTCTAAGATTAGACCAGACTGAGGGTTGTGGTAGCAGGATCG
* * *
19250 GCAGCATGCAGGGGGGGACCCGATCGATCCCTGGCTTGCGCATCCTG-CCCTCTGGCCGACTGAG
774 GCAGCACGTA-GGGGGGACCCGATCGATCCC-GGCTTGCGCATCCTGCCCCTCTGGCCGGCTGAG
* *
19314 CGCCCGCGCGCTCATTTCGTGGGTTGACTTAGGCATACGGAGTTCATTCCCAGTCTAA
837 CGCCCGCACGCTCGTTTCGTGGGTTGACTTAGGCATACGGAGTTCATTCCCAGTCTAA
* * * **
19372 GCATACGGAGTTCATTCCCAGCGTAAGATCAGATCAGACTGAGGGTTGTGGGTGCACATGCTGGG
1 GCATACGGAGTTCATTCCCAGTGTAAGATCAGACCAGACCGAGGGTTACGGGTGCACATGCTGGG
* * * * * * *
19437 CACAGGCATGTGCTAGTACCACATTTTTTTTCGCCCGGGGCACCATCTCCGGAGCATAGTCAGAG
66 CTCGGGCATGTGCTGGTGCCACATTTTTTTTCGCCCGGGGCACCATCGCCGGAGCATCG-CGGAG
* * *
19502 AACCTGACCGGTGGCATTGGGGTTCCGGCAATT-GGGGGGCAGGGGGTGTGCGCACATGATGTGC
130 AACCTGACCGGCGGCATTGGGGTTCCGGCGATTGGGGGGGCGGGGGGTGTGCGCACATGATGTGC
* * *
19566 GATGGGTGCTGGTATTTGGTCCTTATATTGGGCCCCTATCCCTCATCAAACCTCGAGAACTCACA
195 GATGGGTGCTGGTACTTGGCCCTTATATTGGCCCCCTATCCCTCATCAAACCTCGAGAACTCACA
19631 CCCCCTTAAAGAGCATTTGAGATTTTACAGGTTTGCTGCCAGTAGCCATTAAAGTGTCTGAAATG
260 CCCCCTTAAAGAGCATTTGAGATTTTACAGGTTTGCTGCCAGTAGCCATTAAAGTGTCTGAAATG
* * * *
19696 GGGACACTTTTTTCAAATTGTCAAAAAATCCTGTACACTTTGAGTTTTTAGCTGAATTTTATTGT
325 GGGACACTTTTTTCAAATGGTCACAAAATCCTGTACACTTCGAGTTTTTAGCTGAATTTTTTTGT
* *** * *
19761 GCATGCCAAAAAAAATACAAGGATCACGTCTTCCAAGTGCAGGGCCAAACCTCCTTCTAAAAAAA
390 GCATGCCAAAAAAAATACAAGGATCACGTCTACCAAGTTTGGGGCCAAAACTCCTTCTGAAAAAA
* * * * *
19826 TTTTAAAAAAATCTCGAACCGTAAAAAGTTCCCACAATTGTGAAAAATAGAAAACGAGTCGTCTT
455 TTTTAAAAAAATCCCGAACCGTAAAAAGTTTCAAAAATCGTGAAAAATAGAAAACGAGTCGTCTT
* *
19891 GCCATGAAACTTCACATGAAGGGTTAAGGGACCATTGTATGAATTTACAAGCCATAACAACTGGC
520 GCCATGAAACTTCACATGAAGGCTTAAGGGACCATTGTATGAATTTACAAGCCATAA-AAATGGC
* * *
19956 ATTGGCATGGCTGAAATATGAAGATGTGCATAAACCCACCAACCACCCTATCGATCCACGGCTTG
584 ATTGGCATGGCAGAAATATGAAGATGTGCCTAAACCCACCTACCACCCTATCGATCCACGGCTTG
* * * *
20021 TGCATCCCGTCTCTCTTGCCGACGTAGTGCCCGCCCGCCCGCTCGTTTCATCGGTTGGCTTAGGC
649 CGCATCCCGCCTCTCTGGCCGACGTAGTGCCCGCCCGCCCGCTCGTTTCGTCGGTTGGCTTAGGC
* * * ** * ** * * *
20086 ATATGGACTTCATTCCCAGTCTAAGA-TCGAACTGGACTGAAGGTTGCAGCAGCAGAATTGGCAG
714 ATACGGAGTTCATTCCCAGTCTAAGATTAG-ACCAGACTGAGGGTTGTGGTAGCAGGATCGGCAG
* * ***
20150 CACGCAAGGGGGGACCCGGTCGATCCTCGGCTTGCGCATCCTGCCCCTCTGGCCTTTTGAGCGCC
778 CACG-TAGGGGGGACCCGATCGATCC-CGGCTTGCGCATCCTGCCCCTCTGGCCGGCTGAGCGCC
* * *
20215 CGCACGCTCATTTCGTGGGTTGACTTATGCATACGAAGTTCATTCCCAGTCTAA
841 CGCACGCTCGTTTCGTGGGTTGACTTAGGCATACGGAGTTCATTCCCAGTCTAA
* * * * *
20269 GCATATGGAGTTCATTCTCAATGTAAGATCCGACCAGACCGAGGGTTACAGGTGCACATGCTGGG
1 GCATACGGAGTTCATTCCCAGTGTAAGATCAGACCAGACCGAGGGTTACGGGTGCACATGCTGGG
* * * * * *
20334 CTCGAGCATGTGCTGGTGTCGCATTTTTTTTTCGCCCGTGGCACCATTGTCGGAGCATCGCAGGA
66 CTCGGGCATGTGCTGGTGCCACA-TTTTTTTTCGCCCGGGGCACCATCGCCGGAGCATCGC-GGA
* * * ** *
20399 GAACCTGATCGGTGGTATTGGGGTTCCGGTAATTGGGGGGGTGGGGGGTGTGCGCACATGATGTG
129 GAACCTGACCGGCGGCATTGGGGTTCCGGCGATTGGGGGGGCGGGGGGTGTGCGCACATGATGTG
*
20464 CGATGGGTGCTGATACTTGGCCCTTATATTGGCCCCCTATCCCTCATCAAACCTCGAGAACTCAC
194 CGATGGGTGCTGGTACTTGGCCCTTATATTGGCCCCCTATCCCTCATCAAACCTCGAGAACTCAC
* ** * *
20529 ACCCTCTTATTGAGCATTTGAGATTTTATAGGTTTGTTGCCAGTAGCCATTAAAGTGTCTGAAAT
259 ACCCCCTTAAAGAGCATTTGAGATTTTACAGGTTTGCTGCCAGTAGCCATTAAAGTGTCTGAAAT
* * * * * *
20594 GGGGACACTTTTTTC-AATGGTCTCAAAATCTTGTACAGTTCAAGCTTTTAGCTGAATTGTTTTG
324 GGGGACACTTTTTTCAAATGGTCACAAAATCCTGTACACTTCGAGTTTTTAGCTGAATTTTTTTG
* * * * *
20658 TGCATGCCAAAAAAAATTCAAGGATTACGTCTACCAAGTTTGGGTCCAAAAATCGTTCTGAAAAA
389 TGCATGCCAAAAAAAATACAAGGATCACGTCTACCAAGTTTGGGGCCAAAACTCCTTCTGAAAAA
** ** *
20723 ATTTT-AAAAAATCTTGAACCGTAAAAAGTTTTGAAAATCATGAAAAATAGAAAACGAGTCGTCT
454 ATTTTAAAAAAATCCCGAACCGTAAAAAGTTTCAAAAATCGTGAAAAATAGAAAACGAGTCGTCT
*
20787 TGCCATTAAACTTCACATGAAGGCTTAAGGGACCATTGTATGAATTTACAAGCCATAAAAATGGC
519 TGCCATGAAACTTCACATGAAGGCTTAAGGGACCATTGTATGAATTTACAAGCCATAAAAATGGC
20852 ATTGGCATGGCAGAAATATGAAGATGTGCCTAAACCCACCTACCACCCTATCGATCCACGGCTTG
584 ATTGGCATGGCAGAAATATGAAGATGTGCCTAAACCCACCTACCACCCTATCGATCCACGGCTTG
* * * ** * * *
20917 TGCATCCTGCCTCTCTGGCCGGCGTAGTGCCTACCCGCCCGCTCATTTCGTTGGTTGGATTAGGC
649 CGCATCCCGCCTCTCTGGCCGACGTAGTGCCCGCCCGCCCGCTCGTTTCGTCGGTTGGCTTAGGC
* * * *
20982 ATATGGAGTTCATTCCCAGTCTAAGTTTAGACCAGACTAAGGGTTGTGGTAGCAGGATCGGTAGC
714 ATACGGAGTTCATTCCCAGTCTAAGATTAGACCAGACTGAGGGTTGTGGTAGCAGGATCGGCAGC
* * * * * *
21047 ATGTAGGTGGGGACCCGACCGATCCTCGGCTTGTGCATCCTGCCACTCCGGCCGGCTGAACGCCC
779 ACGTAGG-GGGGACCCGATCGATCC-CGGCTTGCGCATCCTGCCCCTCTGGCCGGCTGAGCGCCC
* *
21112 ACACGCTCGTTTCATGGGTTGACTTAGGCATACGGAGTTCATTCCCAG--T--
842 GCACGCTCGTTTCGTGGGTTGACTTAGGCATACGGAGTTCATTCCCAGTCTAA
* * *
21161 G--TA---AG---A-T--C-------G----GACCAGACTGAGGGTTGCGGGTGCACATGCTGGT
1 GCATACGGAGTTCATTCCCAGTGTAAGATCAGACCAGACCGAGGGTTACGGGTGCACATGCTGGG
* ** * * * *
21204 CTCGGGCATGTGTTGGTGCTGCATTTTTTTTTTTG-TCGGGGCACCATCGCCAGAGCATCGTCGA
66 CTCGGGCATGTGCTGGTGC--CACATTTTTTTTCGCCCGGGGCACCATCGCCGGAGCATCG-CGG
* *
21268 AGAACCTGACCGGCGGCATTGGGGTTTCGGCGATTGGGGGGGCGGGGGGGGGTGTGTGTGCACAT
128 AGAACCTGACCGGCGGCATTGGGGTTCCGGCGATTGGGGGGGC----GGGGG-GTGTGCGCACAT
* * *
21333 GATGTGTGATGGGTGCTGGTACTTGTCCCTTATATTGGCCCCCTATCCCTCATCAAACCTTGAGA
188 GATGTGCGATGGGTGCTGGTACTTGGCCCTTATATTGGCCCCCTATCCCTCATCAAACCTCGAGA
* *
21398 ACTCACACTCCCTTAAAGAGCATTTGACATTTTACAGGTTTGCTGCCAGTAGCCATTAAAGTGTC
253 ACTCACACCCCCTTAAAGAGCATTTGAGATTTTACAGGTTTGCTGCCAGTAGCCATTAAAGTGTC
* * * *
21463 TAAAATAGGGACACTTTTTTCGAATGGTCACAAAATCCTGTACACTTTGAGTTTTTAGCTGAATT
318 TGAAATGGGGACACTTTTTTCAAATGGTCACAAAATCCTGTACACTTCGAGTTTTTAGCTGAATT
* * * * * *
21528 TTTTTGTGCTTGCCAAAAAAAATAAAAGGATCATGTCTACCAAGTGTGGGGTCAAAACTTCTTCT
383 TTTTTGTGCATGCCAAAAAAAATACAAGGATCACGTCTACCAAGTTTGGGGCCAAAACTCCTTCT
* * * * *
21593 AAAAAAATTTTGAAAAAATCCCGAACCATAAAAAGTTTTAAAAATCGTGAAAAATAGAAAATGAG
448 GAAAAAATTTTAAAAAAATCCCGAACCGTAAAAAGTTTCAAAAATCGTGAAAAATAGAAAACGAG
21658 TCGTCTTGCCATGAAACTTCACATGAAGGCTTAAGGGACCATTGTATGAATTTACAAGCCATAAA
513 TCGTCTTGCCATGAAACTTCACATGAAGGCTTAAGGGACCATTGTATGAATTTACAAGCCATAAA
* *
21723 AATGGCATTGGCATGGCTGAAATATGAAGATGTGCCTAAACCCACCTACCACCCTATCGATCCAG
578 AATGGCATTGGCATGGCAGAAATATGAAGATGTGCCTAAACCCACCTACCACCCTATCGATCCAC
* * ** * * *
21788 GGCTTGCACATCCTGCCTCTCTGGCCGACGTAGTGCTTGCCTGCCCACTCGTTTCGTCGGTCGGC
643 GGCTTGCGCATCCCGCCTCTCTGGCCGACGTAGTGCCCGCCCGCCCGCTCGTTTCGTCGGTTGGC
* * * * *
21853 TTAGGCATACGGAGTTAATTCCCATTCTAAGATCAGACCAAACCGAGGGTTGTGGCT-GCAGGAT
708 TTAGGCATACGGAGTTCATTCCCAGTCTAAGATTAGACCAGACTGAGGGTTGTGG-TAGCAGGAT
** * * * * * *
21917 CAACAACACGTAGGGGGG-CCTCGGTCGATCCCCGGCTTACGCATCCCGCCCCTCTGGCTGGTTG
772 CGGCAGCACGTAGGGGGGACC-CGATCGAT-CCCGGCTTGCGCATCCTGCCCCTCTGGCCGGCTG
* **
21981 AGCACCCGCACGCTCGTTTCACGGGTTGACTTAGG-ATA-GATGAGTTCATTCCCAGTCTAA
835 AGCGCCCGCACGCTCGTTTCGTGGGTTGACTTAGGCATACG--GAGTTCATTCCCAGTCTAA
* * ** *** * *
22041 GAATACGAAGTTCATTCCCAGTGTAAGATTGGAATGGATCGAGGGTTACGGGTGCACATGCTAGG
1 GCATACGGAGTTCATTCCCAGTGTAAGATCAGACCAGACCGAGGGTTACGGGTGCACATGCTGGG
*
22106 CTCGGGCATGTGCTGGTGCCACATTTTTTTTTGCCCGGGGCACCAT---C---G--T--CGGAGA
66 CTCGGGCATGTGCTGGTGCCACATTTTTTTTCGCCCGGGGCACCATCGCCGGAGCATCGCGGAGA
* * * *
22161 ACCTGACTGACGGCATTGGGGTTCCAGCGATTGGGGGGTCGGCGGGGGTGTGCGCACATGATGTG
131 ACCTGACCGGCGGCATTGGGGTTCCGGCGATTGGGGGGGC-G-GGGGGTGTGCGCACATGATGTG
*
22226 CGATGGGTGCTGGTAATTGGCCCTTATATTGGCCCCCTATCCCTCATCAAACCTCGAGAACTCAC
194 CGATGGGTGCTGGTACTTGGCCCTTATATTGGCCCCCTATCCCTCATCAAACCTCGAGAACTCAC
*
22291 ACCCCCTTAAAGAGCATTTGAGATTTTACAGGTTTGCTGCCAGTAGGCATTAAAGTGTCTGAAAT
259 ACCCCCTTAAAGAGCATTTGAGATTTTACAGGTTTGCTGCCAGTAGCCATTAAAGTGTCTGAAAT
* * *
22356 GGGGACACTTTTTTCAAATGGTCACAAAATCCTATACACTTCGAGTTTTTTGCTGAATTTTTTTA
324 GGGGACACTTTTTTCAAATGGTCACAAAATCCTGTACACTTCGAGTTTTTAGCTGAATTTTTTTG
** * * * *
22421 TGCATGCCAGCAAAAATAAAAGGATCACGTCTACCGAGTTTGGGG-CATAACCTCCTTCTAAAAA
389 TGCATGCCAAAAAAAATACAAGGATCACGTCTACCAAGTTTGGGGCCA-AAACTCCTTCTGAAAA
* * * *
22485 AATTTTAAAAAAATCCTGAATCGTAAAGAGTTTCAAAAATCGTGAAAAATA-AAGAACGAGTTGT
453 AATTTTAAAAAAATCCCGAACCGTAAAAAGTTTCAAAAATCGTGAAAAATAGAA-AACGAGTCGT
*
22549 CTTGCCATGAAACTTCACATGAATGCTTAAGGGACCATTGTATGAATTTACAAGCCATAAAAATG
517 CTTGCCATGAAACTTCACATGAAGGCTTAAGGGACCATTGTATGAATTTACAAGCCATAAAAATG
** * * *
22614 GCATTGAAATGGTAGAAATATGAAGATGTTCCTAAACCCACCTACCACCCTATCGATCAACGGCT
582 GCATTGGCATGGCAGAAATATGAAGATGTGCCTAAACCCACCTACCACCCTATCGATCCACGGCT
* *
22679 TGCGCATCCCGCCTCTCTGGCCGGCGTAGTGCCCGCCCACCCGCTCGTTTCGTCGGTTGGCTTAG
647 TGCGCATCCCGCCTCTCTGGCCGACGTAGTGCCCGCCCGCCCGCTCGTTTCGTCGGTTGGCTTAG
* * * * * * * *** * * **
22744 GCATACGGATTTCATTCCTAATGTAAGATCAGACCGGATTGAGGGTTACAGCAGCAAGATCAACA
712 GCATACGGAGTTCATTCCCAGTCTAAGATTAGACCAGACTGAGGGTTGTGGTAGCAGGATCGGCA
** * *
22809 GCACGTAGGGGGGGACCCGATCGATTCCCAACTTACGCATCCTGCCCCTCTGGCCGGCTAAGCGC
777 GCACGTA-GGGGGGACCCGATCGA-TCCCGGCTTGCGCATCCTGCCCCTCTGGCCGGCTGAGCGC
* *
22874 CCGCACGCTCATTTCGTGGGTTGACTTAGGCATATGGAGTTCATTCCCAGTCTAA
840 CCGCACGCTCGTTTCGTGGGTTGACTTAGGCATACGGAGTTCATTCCCAGTCTAA
*
22929 GCATACGGAGTTCATTCCCAGTGTAAGATCAAACCAGACCGAGGGTTACGGGTGCACATGCTGGG
1 GCATACGGAGTTCATTCCCAGTGTAAGATCAGACCAGACCGAGGGTTACGGGTGCACATGCTGGG
* * *
22994 CTCGAGCATGTGCTGGTGCCACATTTTTTTTCGCCCGGGGCACCATCGCCGGAGCATCATCGAAG
66 CTCGGGCATGTGCTGGTGCCACATTTTTTTTCGCCCGGGGCACCATCGCCGGAGCATC-GCGGAG
* *
23059 AACCTGA-CGGACAGCATTGGGGTTCCGGTGATT--GGGGGCGGGGGGTGTGCGCACATGATGTG
130 AACCTGACCGG-CGGCATTGGGGTTCCGGCGATTGGGGGGGCGGGGGGTGTGCGCACATGATGTG
* *
23121 TGATGGGTGCTGGTACTTAGCCCTTATATTGGCCCCCTATCCCTCATCAAACCTCGAGAACTCAC
194 CGATGGGTGCTGGTACTTGGCCCTTATATTGGCCCCCTATCCCTCATCAAACCTCGAGAACTCAC
* *
23186 ACCCCCTTAAAGAGCATTTGAGATTTTACAGGTTTGCTGCTAGTAGGCATTAAAGTGTCTGAAAT
259 ACCCCCTTAAAGAGCATTTGAGATTTTACAGGTTTGCTGCCAGTAGCCATTAAAGTGTCTGAAAT
23251 GGGGACACTTTTTTCAAATGGTCACAAAATCCTGTACACTTCGAGTTTTTAGCTGAATTTTTTTT
324 GGGGACACTTTTTTCAAATGGTCACAAAATCCTGTACACTTCGAGTTTTTAGCTGAA-TTTTTTT
* *
23316 TTGCATGCCAAAAAAAATACAAGGATCACGTCTACCAAGTTTGGGGCCAAAAATCCTTCTGAAAA
388 GTGCATGCCAAAAAAAATACAAGGATCACGTCTACCAAGTTTGGGGCCAAAACTCCTTCTGAAAA
* * ** * * *
23381 AATTTTAAAAAAATCTCGAACCGTTAAAAGTTTTGAAAATCATGAAAAATAAAAAATGAGTCGTC
453 AATTTTAAAAAAATCCCGAACCGTAAAAAGTTTCAAAAATCGTGAAAAATAGAAAACGAGTCGTC
* * *
23446 TTGCCATGAAACTTCACATGAAGGCTTAAGGGACCATTGTATGAATTTAGAAGCCTTAAAAACGG
518 TTGCCATGAAACTTCACATGAAGGCTTAAGGGACCATTGTATGAATTTACAAGCCATAAAAATGG
* * **
23511 CATTGGCATGGTAGAAGTATGAAGATGTGCCTAAACCCATGTACCACCCTATCGATC
583 CATTGGCATGGCAGAAATATGAAGATGTGCCTAAACCCACCTACCACCCTATCGATC
23568 TGCCCGTCCG
Statistics
Matches: 4471, Mismatches: 535, Indels: 181
0.86 0.10 0.03
Matches are distributed among these distances:
870 103 0.02
871 10 0.00
872 1 0.00
874 7 0.00
875 154 0.03
876 180 0.04
877 293 0.07
878 2 0.00
880 1 0.00
881 1 0.00
882 2 0.00
883 1 0.00
884 1 0.00
885 2 0.00
886 4 0.00
887 542 0.12
888 194 0.04
889 7 0.00
890 43 0.01
891 2 0.00
892 1 0.00
893 1 0.00
894 265 0.06
895 561 0.13
896 606 0.14
897 263 0.06
898 165 0.04
899 568 0.13
900 111 0.02
901 220 0.05
902 160 0.04
ACGTcount: A:0.26, C:0.23, G:0.24, T:0.26
Consensus pattern (894 bp):
GCATACGGAGTTCATTCCCAGTGTAAGATCAGACCAGACCGAGGGTTACGGGTGCACATGCTGGG
CTCGGGCATGTGCTGGTGCCACATTTTTTTTCGCCCGGGGCACCATCGCCGGAGCATCGCGGAGA
ACCTGACCGGCGGCATTGGGGTTCCGGCGATTGGGGGGGCGGGGGGTGTGCGCACATGATGTGCG
ATGGGTGCTGGTACTTGGCCCTTATATTGGCCCCCTATCCCTCATCAAACCTCGAGAACTCACAC
CCCCTTAAAGAGCATTTGAGATTTTACAGGTTTGCTGCCAGTAGCCATTAAAGTGTCTGAAATGG
GGACACTTTTTTCAAATGGTCACAAAATCCTGTACACTTCGAGTTTTTAGCTGAATTTTTTTGTG
CATGCCAAAAAAAATACAAGGATCACGTCTACCAAGTTTGGGGCCAAAACTCCTTCTGAAAAAAT
TTTAAAAAAATCCCGAACCGTAAAAAGTTTCAAAAATCGTGAAAAATAGAAAACGAGTCGTCTTG
CCATGAAACTTCACATGAAGGCTTAAGGGACCATTGTATGAATTTACAAGCCATAAAAATGGCAT
TGGCATGGCAGAAATATGAAGATGTGCCTAAACCCACCTACCACCCTATCGATCCACGGCTTGCG
CATCCCGCCTCTCTGGCCGACGTAGTGCCCGCCCGCCCGCTCGTTTCGTCGGTTGGCTTAGGCAT
ACGGAGTTCATTCCCAGTCTAAGATTAGACCAGACTGAGGGTTGTGGTAGCAGGATCGGCAGCAC
GTAGGGGGGACCCGATCGATCCCGGCTTGCGCATCCTGCCCCTCTGGCCGGCTGAGCGCCCGCAC
GCTCGTTTCGTGGGTTGACTTAGGCATACGGAGTTCATTCCCAGTCTAA
Found at i:22481 original size:887 final size:885
Alignment explanation
Indices: 21259--23567 Score: 3331
Period size: 887 Copynumber: 2.6 Consensus size: 885
21249 ATCGCCAGAG
* *
21259 CATCGTCGAAGAACCTGACCGGCGGCATTGGGGTTTCGGCGATTGGGGGGGCGGGGGGGGGTGTG
1 CATCGTCGAAGAACCTGACCGACGGCATTGGGGTTCCGGCGATT-GGGGGGC---GGGGGG-GTG
* *
21324 TGTGCACATGATGTGTGATGGGTGCTGGTACTTGTCCCTTATATTGGCCCCCTATCCCTCATCAA
61 TGCGCACATGATGTGTGATGGGTGCTGGTACTTGGCCCTTATATTGGCCCCCTATCCCTCATCAA
* * * *
21389 ACCTTGAGAACTCACACTCCCTTAAAGAGCATTTGACATTTTACAGGTTTGCTGCCAGTAGCCAT
126 ACCTCGAGAACTCACACCCCCTTAAAGAGCATTTGAGATTTTACAGGTTTGCTGCCAGTAGGCAT
* * * *
21454 TAAAGTGTCTAAAATAGGGACACTTTTTTCGAATGGTCACAAAATCCTGTACACTTTGAGTTTTT
191 TAAAGTGTCTGAAATGGGGACACTTTTTTCAAATGGTCACAAAATCCTGTACACTTCGAGTTTTT
* * * * *
21519 AGCTGAATTTTTTTGTGCTTGCCAAAAAAAATAAAAGGATCATGTCTACCAAGTGTGGGGTCAAA
256 AGCTGAATTTTTTTATGCATGCCAAAAAAAATAAAAGGATCACGTCTACCAAGTTTGGGGCCAAA
* * *
21584 ACTTCTTCTAAAAAAATTTTGAAAAAATCCCGAACCATAAAAAGTTTTAAAAATCGTGAAAAATA
321 ACTCCTTCTAAAAAAATTTTAAAAAAATCCCGAACCGTAAAAAGTTTTAAAAATCGTGAAAAATA
21649 GAAAATGAGTCGTCTTGCCATGAAACTTCACATGAAGGCTTAAGGGACCATTGTATGAATTTACA
386 -AAAATGAGTCGTCTTGCCATGAAACTTCACATGAAGGCTTAAGGGACCATTGTATGAATTTACA
21714 AGCCATAAAAATGGCATTGGCATGGCT-GAAATATGAAGATGTGCCTAAACCCACCTACCACCCT
450 AGCCATAAAAATGGCATTGGCATGG-TAGAAATATGAAGATGTGCCTAAACCCACCTACCACCCT
* * * ** **
21778 ATCGATCCAGGGCTTGCACATCCTGCCTCTCTGGCCGACGTAGTGCTTGCCTGCCCACTCGTTTC
514 ATCGATCAACGGCTTGCACATCCCGCCTCTCTGGCCGACGTAGTGCCCGCCCACCCACTCGTTTC
* ***
21843 GTCGGTCGGCTTAGGCATACGGAGTTAATTCCCATTCTAAGATCAGACCAAACCGAGGGTTGTGG
579 GTCGGTCGGCTTAGGCATACGGAGTTAATTCCCAATCTAAGATCAGACCAAACCGAGGGTTACAG
* * * **
21908 CTGCAGGATCAACAACACGTA-GGGGGG-CCTCGGTCGATCCCCGGCTTACGCATCCCGCCCCTC
644 CAGCAAGATCAACAACACGTAGGGGGGGACC-CGATCGATCCCCAACTTACGCATCCCGCCCCTC
* * * *
21971 TGGCTGGTTGAGCACCCGCACGCTCGTTTCACGGGTTGACTTAGG-ATA-GATGAGTTCATTCCC
708 TGGCCGGCTAAGCACCCGCACGCTCATTTCACGGGTTGACTTAGGCATATG--GAGTTCATTCCC
** ** *
22034 AGTCTAAGAATACGAAGTTCATTCCCAGTGTAAGATTGGAA-TGGATCGAGGGTTACGGGTGCAC
771 AGTCTAAGAATACGAAGTTCATTCCCAGTGTAAGA-TCAAACCAGACCGAGGGTTACGGGTGCAC
* *
22098 ATGCTAGGCTCGGGCATGTGCTGGTGCCACATTTTTTTTTGCCCGGGGCAC
835 ATGCTAGGCTCGAGCATGTGCTGGTGCCACATTTTTTTTCGCCCGGGGCAC
* * *
22149 CATCGTCGGAGAACCTGACTGACGGCATTGGGGTTCCAGCGATTGGGGGGTCGGCGGGGGTGTGC
1 CATCGTCGAAGAACCTGACCGACGGCATTGGGGTTCCGGCGATTGGGGGG-CGG-GGGGGTGTGC
* *
22214 GCACATGATGTGCGATGGGTGCTGGTAATTGGCCCTTATATTGGCCCCCTATCCCTCATCAAACC
64 GCACATGATGTGTGATGGGTGCTGGTACTTGGCCCTTATATTGGCCCCCTATCCCTCATCAAACC
22279 TCGAGAACTCACACCCCCTTAAAGAGCATTTGAGATTTTACAGGTTTGCTGCCAGTAGGCATTAA
129 TCGAGAACTCACACCCCCTTAAAGAGCATTTGAGATTTTACAGGTTTGCTGCCAGTAGGCATTAA
* *
22344 AGTGTCTGAAATGGGGACACTTTTTTCAAATGGTCACAAAATCCTATACACTTCGAGTTTTTTGC
194 AGTGTCTGAAATGGGGACACTTTTTTCAAATGGTCACAAAATCCTGTACACTTCGAGTTTTTAGC
** * *
22409 TGAATTTTTTTATGCATGCCAGCAAAAATAAAAGGATCACGTCTACCGAGTTTGGGG-CATAACC
259 TGAATTTTTTTATGCATGCCAAAAAAAATAAAAGGATCACGTCTACCAAGTTTGGGGCCA-AAAC
* * * *
22473 TCCTTCTAAAAAAATTTTAAAAAAATCCTGAATCGTAAAGAGTTTCAAAAATCGTGAAAAATAAA
323 TCCTTCTAAAAAAATTTTAAAAAAATCCCGAACCGTAAAAAGTTTTAAAAATCGTGAAAAATAAA
* * *
22538 GAACGAGTTGTCTTGCCATGAAACTTCACATGAATGCTTAAGGGACCATTGTATGAATTTACAAG
388 -AATGAGTCGTCTTGCCATGAAACTTCACATGAAGGCTTAAGGGACCATTGTATGAATTTACAAG
** *
22603 CCATAAAAATGGCATTGAAATGGTAGAAATATGAAGATGTTCCTAAACCCACCTACCACCCTATC
452 CCATAAAAATGGCATTGGCATGGTAGAAATATGAAGATGTGCCTAAACCCACCTACCACCCTATC
* * *
22668 GATCAACGGCTTGCGCATCCCGCCTCTCTGGCCGGCGTAGTGCCCGCCCACCCGCTCGTTTCGTC
517 GATCAACGGCTTGCACATCCCGCCTCTCTGGCCGACGTAGTGCCCGCCCACCCACTCGTTTCGTC
* * * * * ** **
22733 GGTTGGCTTAGGCATACGGATTTCATTCCTAATGTAAGATCAGACCGGATTGAGGGTTACAGCAG
582 GGTCGGCTTAGGCATACGGAGTTAATTCCCAATCTAAGATCAGACCAAACCGAGGGTTACAGCAG
* * *
22798 CAAGATCAACAGCACGTAGGGGGGGACCCGATCGATTCCCAACTTACGCATCCTGCCCCTCTGGC
647 CAAGATCAACAACACGTAGGGGGGGACCCGATCGATCCCCAACTTACGCATCCCGCCCCTCTGGC
* **
22863 CGGCTAAGCGCCCGCACGCTCATTTCGTGGGTTGACTTAGGCATATGGAGTTCATTCCCAGTCTA
712 CGGCTAAGCACCCGCACGCTCATTTCACGGGTTGACTTAGGCATATGGAGTTCATTCCCAGTCTA
* * *
22928 AGCATACGGAGTTCATTCCCAGTGTAAGATCAAACCAGACCGAGGGTTACGGGTGCACATGCTGG
777 AGAATACGAAGTTCATTCCCAGTGTAAGATCAAACCAGACCGAGGGTTACGGGTGCACATGCTAG
22993 GCTCGAGCATGTGCTGGTGCCACATTTTTTTTCGCCCGGGGCAC
842 GCTCGAGCATGTGCTGGTGCCACATTTTTTTTCGCCCGGGGCAC
* * *
23037 CATCGCCGGAGCATCATCGAAGAACCTGACGGACAGCATTGGGGTTCCGGTGATT-GGGGGC-GG
1 CAT---C---G-----TCGAAGAACCTGACCGACGGCATTGGGGTTCCGGCGATTGGGGGGCGGG
*
23100 GGGGTGTGCGCACATGATGTGTGATGGGTGCTGGTACTTAGCCCTTATATTGGCCCCCTATCCCT
55 GGGGTGTGCGCACATGATGTGTGATGGGTGCTGGTACTTGGCCCTTATATTGGCCCCCTATCCCT
*
23165 CATCAAACCTCGAGAACTCACACCCCCTTAAAGAGCATTTGAGATTTTACAGGTTTGCTGCTAGT
120 CATCAAACCTCGAGAACTCACACCCCCTTAAAGAGCATTTGAGATTTTACAGGTTTGCTGCCAGT
23230 AGGCATTAAAGTGTCTGAAATGGGGACACTTTTTTCAAATGGTCACAAAATCCTGTACACTTCGA
185 AGGCATTAAAGTGTCTGAAATGGGGACACTTTTTTCAAATGGTCACAAAATCCTGTACACTTCGA
* *
23295 GTTTTTAGCTGAATTTTTTTTTTGCATGCCAAAAAAAATACAAGGATCACGTCTACCAAGTTTGG
250 GTTTTTAGCTGAA-TTTTTTTATGCATGCCAAAAAAAATAAAAGGATCACGTCTACCAAGTTTGG
* * * * * *
23360 GGCCAAAAATCCTTCTGAAAAAATTTTAAAAAAATCTCGAACCGTTAAAAGTTTTGAAAATCATG
314 GGCCAAAACTCCTTCTAAAAAAATTTTAAAAAAATCCCGAACCGTAAAAAGTTTTAAAAATCGTG
23425 AAAAATAAAAAATGAGTCGTCTTGCCATGAAACTTCACATGAAGGCTTAAGGGACCATTGTATGA
379 AAAAAT-AAAAATGAGTCGTCTTGCCATGAAACTTCACATGAAGGCTTAAGGGACCATTGTATGA
* * * * **
23490 ATTTAGAAGCCTTAAAAACGGCATTGGCATGGTAGAAGTATGAAGATGTGCCTAAACCCATGTAC
443 ATTTACAAGCCATAAAAATGGCATTGGCATGGTAGAAATATGAAGATGTGCCTAAACCCACCTAC
23555 CACCCTATCGATC
508 CACCCTATCGATC
23568 TGCCCGTCCG
Statistics
Matches: 1268, Mismatches: 127, Indels: 42
0.88 0.09 0.03
Matches are distributed among these distances:
886 5 0.00
887 544 0.43
888 192 0.15
889 11 0.01
890 41 0.03
891 1 0.00
894 1 0.00
895 203 0.16
896 225 0.18
897 6 0.00
898 5 0.00
899 34 0.03
ACGTcount: A:0.27, C:0.23, G:0.24, T:0.27
Consensus pattern (885 bp):
CATCGTCGAAGAACCTGACCGACGGCATTGGGGTTCCGGCGATTGGGGGGCGGGGGGGTGTGCGC
ACATGATGTGTGATGGGTGCTGGTACTTGGCCCTTATATTGGCCCCCTATCCCTCATCAAACCTC
GAGAACTCACACCCCCTTAAAGAGCATTTGAGATTTTACAGGTTTGCTGCCAGTAGGCATTAAAG
TGTCTGAAATGGGGACACTTTTTTCAAATGGTCACAAAATCCTGTACACTTCGAGTTTTTAGCTG
AATTTTTTTATGCATGCCAAAAAAAATAAAAGGATCACGTCTACCAAGTTTGGGGCCAAAACTCC
TTCTAAAAAAATTTTAAAAAAATCCCGAACCGTAAAAAGTTTTAAAAATCGTGAAAAATAAAAAT
GAGTCGTCTTGCCATGAAACTTCACATGAAGGCTTAAGGGACCATTGTATGAATTTACAAGCCAT
AAAAATGGCATTGGCATGGTAGAAATATGAAGATGTGCCTAAACCCACCTACCACCCTATCGATC
AACGGCTTGCACATCCCGCCTCTCTGGCCGACGTAGTGCCCGCCCACCCACTCGTTTCGTCGGTC
GGCTTAGGCATACGGAGTTAATTCCCAATCTAAGATCAGACCAAACCGAGGGTTACAGCAGCAAG
ATCAACAACACGTAGGGGGGGACCCGATCGATCCCCAACTTACGCATCCCGCCCCTCTGGCCGGC
TAAGCACCCGCACGCTCATTTCACGGGTTGACTTAGGCATATGGAGTTCATTCCCAGTCTAAGAA
TACGAAGTTCATTCCCAGTGTAAGATCAAACCAGACCGAGGGTTACGGGTGCACATGCTAGGCTC
GAGCATGTGCTGGTGCCACATTTTTTTTCGCCCGGGGCAC
Found at i:22939 original size:26 final size:26
Alignment explanation
Indices: 22903--22955 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
22893 GTTGACTTAG
*
22903 GCATATGGAGTTCATTCCCAGTCTAA
1 GCATACGGAGTTCATTCCCAGTCTAA
*
22929 GCATACGGAGTTCATTCCCAGTGTAA
1 GCATACGGAGTTCATTCCCAGTCTAA
22955 G
1 G
22956 ATCAAACCAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.26, C:0.23, G:0.23, T:0.28
Consensus pattern (26 bp):
GCATACGGAGTTCATTCCCAGTCTAA
Found at i:25595 original size:26 final size:26
Alignment explanation
Indices: 25559--25611 Score: 88
Period size: 26 Copynumber: 2.0 Consensus size: 26
25549 GTTGACTTAG
25559 GCATACAGAGTTCATTCCCAGTCTAA
1 GCATACAGAGTTCATTCCCAGTCTAA
* *
25585 GCATACGGAGTTCATTCCCAGTGTAA
1 GCATACAGAGTTCATTCCCAGTCTAA
25611 G
1 G
25612 ATTGGACTAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.26
Consensus pattern (26 bp):
GCATACAGAGTTCATTCCCAGTCTAA
Found at i:29338 original size:16 final size:16
Alignment explanation
Indices: 29317--29347 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
29307 CTTTTCCCCG
29317 AAAATTGATTTTTTTT
1 AAAATTGATTTTTTTT
*
29333 AAAATTTATTTTTTT
1 AAAATTGATTTTTTT
29348 AAGGAAAATT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (16 bp):
AAAATTGATTTTTTTT
Found at i:29392 original size:62 final size:61
Alignment explanation
Indices: 29288--29607 Score: 253
Period size: 62 Copynumber: 5.1 Consensus size: 61
29278 TCTTGTGCAG
* ** * *
29288 GGAAAATTGATACTTTCAACTTTTCCCCGAAAATTGA-TTTTTTTTAAAATTTATTTTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTC-AAAA-AAACCTTTTTTTAAAATTTATATTTTTAA
* *
29350 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAAAACC-TTTTTTGAAATTT-TACTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTC-AAAAAAACCTTTTTTTAAAATTTATATTTTTAA
* ** * *
29410 GGAAAATTGATACTTAAATTGATACTTTCAACTTTTCCTCAAAAATA--TTTTTGGAAACTTT-G
1 -G------G--A---AAATTGATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTTAAAATTTAT
*
29472 ATTTTCAA
54 ATTTTTAA
*
29480 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTTTTGAAATTT-TATTTTTAA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAAACC--TTTTTTTAAAATTTATATTTTTAA
* * * *
29542 GGAAAATTGATACTTTCAACTTTTTCTC-AAAAATCTTTTTTTTGAAATTT-TATTTTTAGA
1 GGAAAATTGATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTTAAAATTTATATTTTTA-A
29602 GGAAAA
1 GGAAAA
29608 AAATAAAACA
Statistics
Matches: 213, Mismatches: 26, Indels: 40
0.76 0.09 0.14
Matches are distributed among these distances:
58 31 0.15
59 22 0.10
60 14 0.07
61 21 0.10
62 75 0.35
63 1 0.00
67 1 0.00
69 2 0.01
70 15 0.07
71 6 0.03
72 25 0.12
ACGTcount: A:0.35, C:0.12, G:0.08, T:0.45
Consensus pattern (61 bp):
GGAAAATTGATACTTTCAACTTTTCCTCAAAAAAACCTTTTTTTAAAATTTATATTTTTAA
Found at i:29434 original size:72 final size:70
Alignment explanation
Indices: 29353--29494 Score: 207
Period size: 72 Copynumber: 2.0 Consensus size: 70
29343 TTTTTAAGGA
* *
29353 AAATTGATACTTTCAACTTTTCCTCAAAAAAAACCTTTTTTGAAA-TTTTACTTTT-AAGGAAAA
1 AAATTGATACTTTCAACTTTTCCTC-AAAAAAA--TTTTTGGAAACTTTGA-TTTTCAAGGAAAA
29416 TTGATACTT
62 TTGATACTT
*
29425 AAATTGATACTTTCAACTTTTCCTCAAAAATATTTTTGGAAACTTTGATTTTCAAGGAAAATTGA
1 AAATTGATACTTTCAACTTTTCCTCAAAAAAATTTTTGGAAACTTTGATTTTCAAGGAAAATTGA
29490 TACTT
66 TACTT
29495 TCAACTTTTC
Statistics
Matches: 65, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
69 13 0.20
70 21 0.32
71 6 0.09
72 25 0.38
ACGTcount: A:0.37, C:0.13, G:0.08, T:0.42
Consensus pattern (70 bp):
AAATTGATACTTTCAACTTTTCCTCAAAAAAATTTTTGGAAACTTTGATTTTCAAGGAAAATTGA
TACTT
Found at i:29615 original size:5 final size:5
Alignment explanation
Indices: 29607--29697 Score: 68
Period size: 5 Copynumber: 18.8 Consensus size: 5
29597 TTAGAGGAAA
* *
29607 AAAAT AAAAC AAAAT AAAAGT GAAAAG AAAA- AAAAT AAAA- AAAAT -AAA-
1 AAAAT AAAAT AAAAT AAAA-T -AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT
** *
29655 AAAAT AAAGG AAAGT AAAA- AAAAT AAAAT -AAAT AAATAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAA-AT AAAA
29698 AGAATATTAA
Statistics
Matches: 70, Mismatches: 7, Indels: 18
0.74 0.07 0.19
Matches are distributed among these distances:
4 22 0.31
5 38 0.54
6 6 0.09
7 4 0.06
ACGTcount: A:0.79, C:0.01, G:0.07, T:0.13
Consensus pattern (5 bp):
AAAAT
Found at i:29646 original size:9 final size:9
Alignment explanation
Indices: 29604--29690 Score: 86
Period size: 9 Copynumber: 9.2 Consensus size: 9
29594 TTTTTAGAGG
29604 AAAAAAATA
1 AAAAAAATA
29613 AAACAAAATA
1 AAA-AAAATA
*
29623 AAAGTGAAAAGA
1 AAA---AAAATA
29635 AAAAAAATA
1 AAAAAAATA
29644 AAAAAAAT-
1 AAAAAAATA
29652 AAAAAAATA
1 AAAAAAATA
* *
29661 AAGGAAAGTA
1 AA-AAAAATA
29671 AAAAAAATA
1 AAAAAAATA
*
29680 AAATAAATA
1 AAAAAAATA
29689 AA
1 AA
29691 TATAAAAAGA
Statistics
Matches: 65, Mismatches: 8, Indels: 10
0.78 0.10 0.12
Matches are distributed among these distances:
8 8 0.12
9 33 0.51
10 16 0.25
12 8 0.12
ACGTcount: A:0.80, C:0.01, G:0.07, T:0.11
Consensus pattern (9 bp):
AAAAAAATA
Found at i:29681 original size:36 final size:39
Alignment explanation
Indices: 29604--29690 Score: 119
Period size: 36 Copynumber: 2.3 Consensus size: 39
29594 TTTTTAGAGG
29604 AAAAAAATAAAACAAAATAAAAGTGAAAAGAAAAAAAATA
1 AAAAAAAT-AAACAAAATAAAAGTGAAAAGAAAAAAAATA
29644 AAAAAAATAAA-AAAAT-AAAG-G-AAAGTAAAAAAAATA
1 AAAAAAATAAACAAAATAAAAGTGAAAAG-AAAAAAAATA
*
29680 AAATAAATAAA
1 AAAAAAATAAA
29691 TATAAAAAGA
Statistics
Matches: 45, Mismatches: 1, Indels: 6
0.87 0.02 0.12
Matches are distributed among these distances:
35 4 0.09
36 21 0.47
37 4 0.09
38 5 0.11
39 3 0.07
40 8 0.18
ACGTcount: A:0.80, C:0.01, G:0.07, T:0.11
Consensus pattern (39 bp):
AAAAAAATAAACAAAATAAAAGTGAAAAGAAAAAAAATA
Found at i:29687 original size:4 final size:4
Alignment explanation
Indices: 29675--29755 Score: 58
Period size: 4 Copynumber: 19.0 Consensus size: 4
29665 AAAGTAAAAA
* *
29675 AAAT AAAAT AAAT AAAT ATAA- AAAG AATATT AAAT AAACCT AATCT AA-T
1 AAAT -AAAT AAAT AAAT A-AAT AAAT AA-A-T AAAT AAA--T AA-AT AAAT
*
29724 AAAT AAAT AAAT AAAC AAAT AAAT AAAT AAAT
1 AAAT AAAT AAAT AAAT AAAT AAAT AAAT AAAT
29756 TCAAAAAAAA
Statistics
Matches: 64, Mismatches: 4, Indels: 17
0.75 0.05 0.20
Matches are distributed among these distances:
3 5 0.08
4 43 0.67
5 11 0.17
6 5 0.08
ACGTcount: A:0.69, C:0.05, G:0.01, T:0.25
Consensus pattern (4 bp):
AAAT
Found at i:30572 original size:22 final size:21
Alignment explanation
Indices: 30547--30615 Score: 63
Period size: 21 Copynumber: 3.2 Consensus size: 21
30537 AATCAAACAA
30547 AAATAAATCAGATAAATTAGAT
1 AAATAAATCAGATAAATTA-AT
*
30569 AAATTAA-CAGATAAATTAA-
1 AAATAAATCAGATAAATTAAT
*
30588 AATTAAATAACAGAT-AATTACAT
1 AAATAAAT--CAGATAAATTA-AT
30611 AAATA
1 AAATA
30616 TTAACAAAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 9
0.75 0.08 0.18
Matches are distributed among these distances:
19 5 0.13
20 1 0.03
21 16 0.42
22 12 0.32
23 4 0.11
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.28
Consensus pattern (21 bp):
AAATAAATCAGATAAATTAAT
Found at i:30581 original size:21 final size:21
Alignment explanation
Indices: 30555--30614 Score: 70
Period size: 21 Copynumber: 2.9 Consensus size: 21
30545 AAAAATAAAT
*
30555 CAGATAAATTAGATAAATTAA
1 CAGATAAATTAAATAAATTAA
30576 CAGATAAATTAAAATTAAA-TAA
1 CAGATAAATT-AAA-TAAATTAA
*
30598 CAGAT-AATTACATAAAT
1 CAGATAAATTAAATAAAT
30615 ATTAACAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 7
0.79 0.05 0.16
Matches are distributed among these distances:
19 4 0.12
20 2 0.06
21 14 0.41
22 10 0.29
23 4 0.12
ACGTcount: A:0.58, C:0.07, G:0.07, T:0.28
Consensus pattern (21 bp):
CAGATAAATTAAATAAATTAA
Found at i:30582 original size:12 final size:12
Alignment explanation
Indices: 30565--30604 Score: 50
Period size: 12 Copynumber: 3.5 Consensus size: 12
30555 CAGATAAATT
30565 AGATAAATTAAC
1 AGATAAATTAAC
30577 AGATAAATTAA-
1 AGATAAATTAAC
30588 A-ATTAAA-TAAC
1 AGA-TAAATTAAC
30599 AGATAA
1 AGATAA
30605 TTACATAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 7
0.78 0.00 0.22
Matches are distributed among these distances:
10 4 0.16
11 9 0.36
12 12 0.48
ACGTcount: A:0.62, C:0.05, G:0.07, T:0.25
Consensus pattern (12 bp):
AGATAAATTAAC
Found at i:30748 original size:62 final size:62
Alignment explanation
Indices: 30638--30756 Score: 145
Period size: 62 Copynumber: 1.9 Consensus size: 62
30628 AAGAAGAGAA
* * * *
30638 AAAAATAATAAAATAATAATAACAATAAAGATATATACATATTAAT-AAATACATAAATCCCT
1 AAAAATAATAAAATAAAAAAAACAAAAAAAATATATACATATTAATAAAATA-ATAAATCCCT
*
30700 AAAAATAATAATAATAAAAAAAAGGAAAAAAAATATATACATA-T-ATAAAATAATAAA
1 AAAAATAATAA-AATAAAAAAAA-CAAAAAAAATATATACATATTAATAAAATAATAAA
30757 AATAAAAATA
Statistics
Matches: 49, Mismatches: 5, Indels: 6
0.82 0.08 0.10
Matches are distributed among these distances:
62 18 0.37
63 15 0.31
64 16 0.33
ACGTcount: A:0.67, C:0.06, G:0.03, T:0.24
Consensus pattern (62 bp):
AAAAATAATAAAATAAAAAAAACAAAAAAAATATATACATATTAATAAAATAATAAATCCCT
Found at i:30763 original size:5 final size:5
Alignment explanation
Indices: 30744--30826 Score: 64
Period size: 5 Copynumber: 16.4 Consensus size: 5
30734 ATATACATAT
* * * *
30744 ATAAA ATAAT A-AAA ATAAAA ATAAA ATAAA ATAAA ATGTAA A-AAT ACAAA
1 ATAAA ATAAA ATAAA AT-AAA ATAAA ATAAA ATAAA AT-AAA ATAAA ATAAA
*
30794 ATAAAA ATAAA TTAAA A-AAA ATAAAA ATAAA AT
1 AT-AAA ATAAA ATAAA ATAAA AT-AAA ATAAA AT
30827 GAAGAGAAAA
Statistics
Matches: 62, Mismatches: 9, Indels: 14
0.73 0.11 0.16
Matches are distributed among these distances:
4 9 0.15
5 35 0.56
6 18 0.29
ACGTcount: A:0.77, C:0.01, G:0.01, T:0.20
Consensus pattern (5 bp):
ATAAA
Found at i:30767 original size:20 final size:19
Alignment explanation
Indices: 30744--30825 Score: 76
Period size: 20 Copynumber: 4.0 Consensus size: 19
30734 ATATACATAT
30744 ATAAAATAATAAAAATAAAA
1 ATAAAA-AATAAAAATAAAA
*
30764 ATAAAATAAAATAAAATGTAAAA
1 AT--AA-AAAATAAAA-ATAAAA
*
30787 ATACAAAATAAAAATAAATTA
1 ATAAAAAATAAAAATAAA--A
30808 A-AAAAAATAAAAATAAAA
1 ATAAAAAATAAAAATAAAA
30826 TGAAGAGAAA
Statistics
Matches: 52, Mismatches: 4, Indels: 14
0.74 0.06 0.20
Matches are distributed among these distances:
18 1 0.02
19 4 0.08
20 26 0.50
21 3 0.06
22 9 0.17
23 9 0.17
ACGTcount: A:0.78, C:0.01, G:0.01, T:0.20
Consensus pattern (19 bp):
ATAAAAAATAAAAATAAAA
Found at i:30795 original size:45 final size:46
Alignment explanation
Indices: 30701--30827 Score: 134
Period size: 45 Copynumber: 2.8 Consensus size: 46
30691 TAAATCCCTA
* ** * * *
30701 AAAATAATAATAATAAAAAAAAGGAAAA-AAAATATATACATATAT
1 AAAATAATAAAAATAAAAAAAAATAAAATAAAATGTATACAAATAC
30746 AAAATAATAAAAATAAAAATAAAATAAAATAAAATGTA-A-AAATAC
1 AAAATAATAAAAATAAAAA-AAAATAAAATAAAATGTATACAAATAC
* *
30791 AAAATAAAAATAAATTAAAAAAAATAAAAATAAAATG
1 AAAATAATAA-AAATAAAAAAAAAT-AAAATAAAATG
30828 AAGAGAAAAA
Statistics
Matches: 70, Mismatches: 8, Indels: 7
0.82 0.09 0.08
Matches are distributed among these distances:
45 36 0.51
46 27 0.39
47 7 0.10
ACGTcount: A:0.75, C:0.02, G:0.03, T:0.20
Consensus pattern (46 bp):
AAAATAATAAAAATAAAAAAAAATAAAATAAAATGTATACAAATAC
Found at i:30802 original size:6 final size:6
Alignment explanation
Indices: 30751--30825 Score: 82
Period size: 6 Copynumber: 12.2 Consensus size: 6
30741 TATATAAAAT
*
30751 AATAAA AATAAA AAT-AA AAT-AA AATAAA ATGTAAA AATACAA AATAAA
1 AATAAA AATAAA AATAAA AATAAA AATAAA A-ATAAA AATA-AA AATAAA
*
30799 AATAAA TTAAAAAA AATAAA AATAAA A
1 AATAAA --AATAAA AATAAA AATAAA A
30826 TGAAGAGAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 10
0.81 0.05 0.14
Matches are distributed among these distances:
5 10 0.17
6 34 0.57
7 11 0.18
8 5 0.08
ACGTcount: A:0.79, C:0.01, G:0.01, T:0.19
Consensus pattern (6 bp):
AATAAA
Found at i:30812 original size:26 final size:26
Alignment explanation
Indices: 30699--30825 Score: 96
Period size: 26 Copynumber: 4.8 Consensus size: 26
30689 CATAAATCCC
* * *
30699 TAAAAATAATAATAATAAAAA-AAAG
1 TAAAAAAAATAAAAATAAAAATAAAA
* * * * * *
30724 GAAAAAAAATATATACATATATAAAA
1 TAAAAAAAATAAAAATAAAAATAAAA
*
30750 TAATAAAAATAAAAAT-AAAATAAAA
1 TAAAAAAAATAAAAATAAAAATAAAA
*
30775 TAAAATGTAAAAATACAAAATAAAAATAAAT
1 T-AAA---AAAAATA-AAAATAAAAATAAAA
30806 TAAAAAAAATAAAAATAAAA
1 TAAAAAAAATAAAAATAAAA
30826 TGAAGAGAAA
Statistics
Matches: 77, Mismatches: 18, Indels: 13
0.71 0.17 0.12
Matches are distributed among these distances:
25 21 0.27
26 25 0.32
27 7 0.09
29 7 0.09
30 8 0.10
31 9 0.12
ACGTcount: A:0.76, C:0.02, G:0.02, T:0.20
Consensus pattern (26 bp):
TAAAAAAAATAAAAATAAAAATAAAA
Found at i:31138 original size:42 final size:42
Alignment explanation
Indices: 31038--31210 Score: 206
Period size: 41 Copynumber: 4.1 Consensus size: 42
31028 TTTGATCAAG
* * * *
31038 GCTCCTCTGAACAGAGGCTCAACGACTTTGAGAAACATAAATG
1 GCTCCTCTAAACAGAGGCACAACGACTTTG-GAAAAATAAATT
* *
31081 GCTCCTCTAATCAGAGGCTCAACGACTTTGGAAAAATAAATT
1 GCTCCTCTAAACAGAGGCACAACGACTTTGGAAAAATAAATT
* * *
31123 GCTCCTCTAAACAGAGGCACCACAACTTTGG-AAAGTAAATT
1 GCTCCTCTAAACAGAGGCACAACGACTTTGGAAAAATAAATT
* * *
31164 GCTCCTCTAAATAGAGGCACCACGACTTT-GAAAAGTAAATT
1 GCTCCTCTAAACAGAGGCACAACGACTTTGGAAAAATAAATT
*
31205 ACTCCT
1 GCTCCT
31211 TGACAATCAT
Statistics
Matches: 117, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
40 1 0.01
41 51 0.44
42 37 0.32
43 28 0.24
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (42 bp):
GCTCCTCTAAACAGAGGCACAACGACTTTGGAAAAATAAATT
Found at i:31189 original size:83 final size:84
Alignment explanation
Indices: 31038--31210 Score: 217
Period size: 83 Copynumber: 2.1 Consensus size: 84
31028 TTTGATCAAG
* * * *
31038 GCTCCTCTGAACAGAGGCTCAACGACTTTGAGAAACATAAATGGCTCCTCTAATCAGAGGCTCAA
1 GCTCCTCTAAACAGAGGCACAACAACTTTGAGAAACATAAATGGCTCCTCTAATCAGAGGCACAA
31103 CGACTTTGGAAAAATAAATT
66 CGACTTT-GAAAAATAAATT
* * * *
31123 GCTCCTCTAAACAGAGGCACCACAACTTTG-GAAA-GTAAATTGCTCCTCTAAAT-AGAGGCACC
1 GCTCCTCTAAACAGAGGCACAACAACTTTGAGAAACATAAATGGCTCCTCT-AATCAGAGGCACA
*
31185 ACGACTTTGAAAAGTAAATT
65 ACGACTTTGAAAAATAAATT
*
31205 ACTCCT
1 GCTCCT
31211 TGACAATCAT
Statistics
Matches: 77, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
82 16 0.21
83 28 0.36
84 7 0.09
85 26 0.34
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.24
Consensus pattern (84 bp):
GCTCCTCTAAACAGAGGCACAACAACTTTGAGAAACATAAATGGCTCCTCTAATCAGAGGCACAA
CGACTTTGAAAAATAAATT
Found at i:32230 original size:8 final size:8
Alignment explanation
Indices: 32219--32308 Score: 58
Period size: 8 Copynumber: 10.8 Consensus size: 8
32209 TTTCACTTTT
32219 TTTTTTCA
1 TTTTTTCA
32227 TTTTTTCA
1 TTTTTTCA
32235 TTTTTTCA
1 TTTTTTCA
**
32243 TCATTT--
1 TTTTTTCA
* *
32249 TTTTCTCG
1 TTTTTTCA
*
32257 TTTTCTCA
1 TTTTTTCA
32265 TTTTTTCACCA
1 TTTTTT---CA
32276 TTTTTTTTCA
1 --TTTTTTCA
*
32286 TTTTCTCA
1 TTTTTTCA
32294 TTTTTTTCA
1 -TTTTTTCA
32303 TTTTTT
1 TTTTTT
32309 TTCAAGCATA
Statistics
Matches: 65, Mismatches: 9, Indels: 16
0.72 0.10 0.18
Matches are distributed among these distances:
6 3 0.05
8 45 0.69
9 7 0.11
10 2 0.03
11 2 0.03
13 6 0.09
ACGTcount: A:0.11, C:0.17, G:0.01, T:0.71
Consensus pattern (8 bp):
TTTTTTCA
Found at i:32239 original size:29 final size:29
Alignment explanation
Indices: 32203--32310 Score: 130
Period size: 30 Copynumber: 3.7 Consensus size: 29
32193 GCCTTGAGTC
32203 CTCA-TTTTTCACTTTTTTTTTTCATTTT
1 CTCATTTTTTCACTTTTTTTTTTCATTTT
* * * *
32231 TTCATTTTTTCATCATTTTTTTCTCGTTTT
1 CTCATTTTTTCA-CTTTTTTTTTTCATTTT
**
32261 CTCATTTTTTCACCATTTTTTTTCATTTT
1 CTCATTTTTTCACTTTTTTTTTTCATTTT
32290 CTCATTTTTTTCA-TTTTTTTT
1 CTCA-TTTTTTCACTTTTTTTT
32311 CAAGCATAGT
Statistics
Matches: 66, Mismatches: 11, Indels: 5
0.80 0.13 0.06
Matches are distributed among these distances:
28 3 0.05
29 30 0.45
30 33 0.50
ACGTcount: A:0.11, C:0.18, G:0.01, T:0.70
Consensus pattern (29 bp):
CTCATTTTTTCACTTTTTTTTTTCATTTT
Found at i:32252 original size:30 final size:30
Alignment explanation
Indices: 32203--32310 Score: 136
Period size: 29 Copynumber: 3.8 Consensus size: 30
32193 GCCTTGAGTC
*
32203 CTCA-TTTTTCA-CTTTTTTTTTTCATTTT
1 CTCATTTTTTCATCATTTTTTTTTCATTTT
* * *
32231 TTCATTTTTTCATCATTTTTTTCTCGTTTT
1 CTCATTTTTTCATCATTTTTTTTTCATTTT
*
32261 CTCATTTTTTCACCA-TTTTTTTTCATTTT
1 CTCATTTTTTCATCATTTTTTTTTCATTTT
32290 CTCATTTTTT--TCATTTTTTTT
1 CTCATTTTTTCATCATTTTTTTT
32311 CAAGCATAGT
Statistics
Matches: 68, Mismatches: 9, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
27 2 0.03
28 10 0.15
29 29 0.43
30 27 0.40
ACGTcount: A:0.11, C:0.18, G:0.01, T:0.70
Consensus pattern (30 bp):
CTCATTTTTTCATCATTTTTTTTTCATTTT
Done.