Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168270.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_5, 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: 27802247
ACGTcount: A:0.35, C:0.15, G:0.15, T:0.35
Warning! 124000 characters in sequence are not A, C, G, or T
File 77 of 147
Found at i:14308919 original size:62 final size:61
Alignment explanation
Indices: 14308831--14308971 Score: 180
Period size: 62 Copynumber: 2.3 Consensus size: 61
14308821 TTTTACCAAA
* * *
14308831 AAAAATACCTTCAATAA-TCTCCTTCAAATTTTTAAATGAGATTATTGAAGGCAT-TTTTTACT
1 AAAAATGCCTTCAATAATTCTCCTTCAAATTTTTAAAAGAAATTATTGAA-G-ATGTTTTT-CT
* *
14308893 AAAAATGCCTTCAATAATTCT-TTTCAAATTTTTAAAAGAAATTATTGAAGATGTTTTTTT
1 AAAAATGCCTTCAATAATTCTCCTTCAAATTTTTAAAAGAAATTATTGAAGATGTTTTTCT
14308953 ACAAAATGCCTTCAATAAT
1 A-AAAATGCCTTCAATAAT
14308972 CCCCTCTATT
Statistics
Matches: 71, Mismatches: 5, Indels: 7
0.86 0.06 0.08
Matches are distributed among these distances:
60 4 0.06
61 23 0.32
62 41 0.58
63 3 0.04
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.40
Consensus pattern (61 bp):
AAAAATGCCTTCAATAATTCTCCTTCAAATTTTTAAAAGAAATTATTGAAGATGTTTTTCT
Found at i:14309129 original size:125 final size:123
Alignment explanation
Indices: 14308988--14309221 Score: 312
Period size: 125 Copynumber: 1.9 Consensus size: 123
14308978 TATTTTTATC
* *
14308988 AAGGGATTATTCAAGGTATTTTCTACCAAAAACAT-ATTCAATAAATTCTTTTAAAAAATTAGAT
1 AAGGGATTATTCAAGGTATTTTCT-CCAAAAA-ATCATTCAATAAATTCTTTTAAAAAAATA-AA
*
14309052 G-GGATTATTAAAGGCATTTT-TAGTAAAAAAAATACCTTGAATAATTCCCTGATAAAAATAT
63 GAGGATTATTAAAGGCATTTTCT-GT-AAAAAAATACCTTCAATAATTCCCTGATAAAAATAT
* * * *
14309113 AAGGGATTATTGAAGGTATTTTCTGCATAAAATGCCTTCAATAAATTCTTTTAAAAAAATAAAGA
1 AAGGGATTATTCAAGGTATTTTCTCCAAAAAAT-CATTCAATAAATTCTTTTAAAAAAATAAAGA
* *
14309178 GGATTATTAAAGGTATTTTCTGTAAAAAAATGCCTTCAATAATT
65 GGATTATTAAAGGCATTTTCTGTAAAAAAATACCTTCAATAATT
14309222 TCTTTTAAAA
Statistics
Matches: 96, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
123 2 0.02
124 26 0.27
125 67 0.70
126 1 0.01
ACGTcount: A:0.43, C:0.10, G:0.12, T:0.35
Consensus pattern (123 bp):
AAGGGATTATTCAAGGTATTTTCTCCAAAAAATCATTCAATAAATTCTTTTAAAAAAATAAAGAG
GATTATTAAAGGCATTTTCTGTAAAAAAATACCTTCAATAATTCCCTGATAAAAATAT
Found at i:14309268 original size:63 final size:63
Alignment explanation
Indices: 14308990--14309281 Score: 262
Period size: 62 Copynumber: 4.7 Consensus size: 63
14308980 TTTTTATCAA
* ** * *
14308990 GGGATTATTCAAGGTATTTTCTACCAAAAACATA--TTCAATAAATTCTTTTAAAAAATTAGAT
1 GGGATTATTAAAGGTATTTTCTGTCAAAAA-ATACCTTCAATAATTTCTTTTAAAAAATTAGAG
* * * ** *
14309052 GGGATTATTAAAGGCATTTT-TAGTAAAAAAAATACCTTGAATAA-TTCCCTGATAAAAATATA-
1 GGGATTATTAAAGGTATTTTCT-GT-CAAAAAATACCTTCAATAATTTCTTTTA-AAAAAT-TAG
14309114 A-
62 AG
* * * * * *
14309115 GGGATTATTGAAGGTATTTTCTG-CATAAAATGCCTTCAATAAATTCTTTTAAAAAAATAAAG
1 GGGATTATTAAAGGTATTTTCTGTCAAAAAATACCTTCAATAATTTCTTTTAAAAAATTAGAG
* * *
14309177 AGGATTATTAAAGGTATTTTCTGTAAAAAAATGCCTTCAATAATTTCTTTT-AAAAATTAGAG
1 GGGATTATTAAAGGTATTTTCTGTCAAAAAATACCTTCAATAATTTCTTTTAAAAAATTAGAG
* *
14309239 GGGATTATTAAAGATGTTTT-TAGTC-AAAAATACCTTCAATAAT
1 GGGATTATTAAAGGTATTTTCT-GTCAAAAAATACCTTCAATAAT
14309282 CTCCTCGTCA
Statistics
Matches: 187, Mismatches: 31, Indels: 25
0.77 0.13 0.10
Matches are distributed among these distances:
60 2 0.01
61 40 0.21
62 75 0.40
63 53 0.28
64 15 0.08
65 2 0.01
ACGTcount: A:0.42, C:0.10, G:0.13, T:0.36
Consensus pattern (63 bp):
GGGATTATTAAAGGTATTTTCTGTCAAAAAATACCTTCAATAATTTCTTTTAAAAAATTAGAG
Found at i:14314363 original size:13 final size:14
Alignment explanation
Indices: 14314345--14314382 Score: 51
Period size: 13 Copynumber: 2.8 Consensus size: 14
14314335 CTTTTCAATG
14314345 TCTTTATATATG-T
1 TCTTTATATATGTT
*
14314358 TCTTTACATATGTT
1 TCTTTATATATGTT
*
14314372 TTTTTATATAT
1 TCTTTATATAT
14314383 TTGCTTTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
13 11 0.52
14 10 0.48
ACGTcount: A:0.24, C:0.08, G:0.05, T:0.63
Consensus pattern (14 bp):
TCTTTATATATGTT
Found at i:14315800 original size:161 final size:160
Alignment explanation
Indices: 14315562--14316620 Score: 1063
Period size: 161 Copynumber: 6.6 Consensus size: 160
14315552 GTTACGAGTT
* * ** * * * * * *
14315562 AAAAATAGAAATTTACGGTTATTGTTTTGTTTTAATAGTTTTGATAGTTTCAATACATGATATTA
1 AAAAATACAAATTTGCTATTATTGTTCTATTTTAACAATTTGGATAGCTTCAATACATGATATTA
* * * * *
14315627 AACTTATCCAAATTATTGAACTTAGTTTCTACAGTTGATATGTATGAAAAAGTTATTGTTTATAT
66 AACTTGTTCAAATGATTGAACTTGGTTTCTACAGTTGATATGTATGAAAAAGTTATTGTTTATGT
* * *
14315692 CTATTTAGGACTTTTTGTGTCGTTAATAGGA
131 CTATTTAGGACTTTTTGTG-CATTAAAAGGC
* ** *
14315723 AAAAATATAAATTTGCTATTATTGTTCTATTTTAACAATTTGGATAGCCCCAATACATGATATCA
1 AAAAATACAAATTTGCTATTATTGTTCTATTTTAACAATTTGGATAGCTTCAATACATGATATTA
* * * *
14315788 AACTTGTCCAAATGATTGAACTTGGTTTCTACAATTGAAATGTATGAAAAAGTTATTGTTTACGT
66 AACTTGTTCAAATGATTGAACTTGGTTTCTACAGTTGATATGTATGAAAAAGTTATTGTTTATGT
* * * * *
14315853 ATGTTTAAGACTTCTTGTGCTATTAAGAGGC
131 CTATTTAGGACTTTTTGTGC-ATTAAAAGGC
* * * * * * * *
14315884 AAACATGCAAAATTGTTGTTATTGTTCCATTTTAACAATTTGCATAGCTTTAATACATGATATTA
1 AAAAATACAAATTTGCTATTATTGTTCTATTTTAACAATTTGGATAGCTTCAATACATGATATTA
* * * * * * * * **
14315949 AACTTGTTGAAATAATTGAACTTGGTATCCATAGTTGATATGTGTGAAAAGGCTAACGTTTATGT
66 AACTTGTTCAAATGATTGAACTTGGTTTCTACAGTTGATATGTATGAAAAAGTTATTGTTTATGT
* *
14316014 CTATTTA-AACTTTTTATGCCATTAAAAGGC
131 CTATTTAGGACTTTTTGTG-CATTAAAAGGC
* * * *
14316044 -AAAATGCAAATTTGATATTATTGTTCTATTTTAATAGTTTGGATAGCTTCAATACATGATATTA
1 AAAAATACAAATTTGCTATTATTGTTCTATTTTAACAATTTGGATAGCTTCAATACATGATATTA
* * * **
14316108 AACTTGTCCGAATGATTGAACTTGGTTTCTA-AGGTTGATATGTGTGAAAAAGTTATCATTTATG
66 AACTTGTTCAAATGATTGAACTTGGTTTCTACA-GTTGATATGTATGAAAAAGTTATTGTTTATG
*
14316172 TCTATTTAGGA-TTATTTTTGCATTTAAAAGGC
130 TCTATTTAGGACTT-TTTGTGCA-TTAAAAGGC
* * * *
14316204 AAAAATACAAATTTGCTATTATTATTCTATTTTAACAGTTTGGATGGCTTCAATATATGATATTA
1 AAAAATACAAATTTGCTATTATTGTTCTATTTTAACAATTTGGATAGCTTCAATACATGATATTA
* * * ** * *
14316269 AACTTTTTCAAATGATTGAACTTGGTTATC-ACAATTGATATATATGAAAAAACTACTGTTTATC
66 AACTTGTTCAAATGATTGAACTTGGTT-TCTACAGTTGATATGTATGAAAAAGTTATTGTTTATG
* **
14316333 TCTATTTAGGA-TTTTTCAG-GCCGTTAAAAAGAA
130 TCTATTTAGGACTTTTT--GTG-CATT-AAAAGGC
* * * * * * *
14316366 AAAAATACAAATTTGTTGTTATTATTTTGTTTTAATAGTTTGGATAGCTTCAATACATGATATTA
1 AAAAATACAAATTTGCTATTATTGTTCTATTTTAACAATTTGGATAGCTTCAATACATGATATTA
* ** * * * **
14316431 AACTTTTTTGAATGATTGAAATTGGTTT-TCACAGTTGATATATATGAAAAAGTTGTTGTTTACC
66 AACTTGTTCAAATGATTGAACTTGGTTTCT-ACAGTTGATATGTATGAAAAAGTTATTGTTTATG
* * * *
14316495 TTTGTTTAGGATTTTTTTTGTCATTAAAAGGC
130 TCTATTTAGGACTTTTTGTG-CATTAAAAGGC
* * *
14316527 AAAAATACAAAGTTGCTATTATTGTTCTGTTGTAACAATTTGGATAGCTTCAATACATGATATTA
1 AAAAATACAAATTTGCTATTATTGTTCTATTTTAACAATTTGGATAGCTTCAATACATGATATTA
*
14316592 AACTTGTTCAAATGATTGAATTTGGTTTC
66 AACTTGTTCAAATGATTGAACTTGGTTTC
14316621 CATGATTGAT
Statistics
Matches: 743, Mismatches: 137, Indels: 35
0.81 0.15 0.04
Matches are distributed among these distances:
158 1 0.00
159 119 0.16
160 36 0.05
161 450 0.61
162 132 0.18
163 5 0.01
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (160 bp):
AAAAATACAAATTTGCTATTATTGTTCTATTTTAACAATTTGGATAGCTTCAATACATGATATTA
AACTTGTTCAAATGATTGAACTTGGTTTCTACAGTTGATATGTATGAAAAAGTTATTGTTTATGT
CTATTTAGGACTTTTTGTGCATTAAAAGGC
Found at i:14316470 original size:323 final size:319
Alignment explanation
Indices: 14315580--14316640 Score: 1150
Period size: 320 Copynumber: 3.3 Consensus size: 319
14315570 AAATTTACGG
* * * * * * * * *
14315580 TTATTGTTTTGTTTTAATAGTTTTGATAGTTTCAATACATGATATTAAACTTATCCAAATTATTG
1 TTATTGTTCTATTTTAACAATTTGGATAGCTTCAATACATGATATTAAACTTGTTCAAATGATTG
* * * * * *
14315645 AACTTAGTTTCTACAGTTGATATGTATGAAAAAGTTATTGTTTATATCTATTTAGGACTTTTT-G
66 AACTTGGTTTCCATA-TTGATATATATGAAAAAGCTACTGTTTATATCTATTTAGGACTTTTTAG
* * * * * * **
14315709 TGTCGTTAATAGGAAAAAATATAAATTTGCTATTATTGTTCTATTTTAACAATTTGGATAGCCCC
130 -GCCGTTAA-AAGAAAAAATACAAATTTGATATTATTGTTCTATTTTAATAGTTTGGATAGCTTC
* * * *
14315774 AATACATGATATCAAACTTGTCCAAATGATTGAACTTGGTTTCTACAATTGAAATGTATGAAAAA
193 AATACATGATATTAAACTTGTCCGAATGATTGAACTTGGTTTCTACAGTTGATATGTATGAAAAA
* * * * * * * *
14315839 GTTATTGTTTACGTATGTTTAAGACTTCTTGTGC-TATTAAGAGGCAAACATGCAAAATTGTTG
258 GTTATTGTTTACGTATGTTTAGGA-TTTTTTTGCAT-TTAAAAGGCAAAAATACAAAATTGCTA
* * * * *
14315902 TTATTGTTCCATTTTAACAATTTGCATAGCTTTAATACATGATATTAAACTTGTTGAAATAATTG
1 TTATTGTTCTATTTTAACAATTTGGATAGCTTCAATACATGATATTAAACTTGTTCAAATGATTG
* * * * * *
14315967 AACTTGGTATCCATAGTTGATATGTGTGAAAAGGCTAAC-GTTTATGTCTATTTA-AACTTTTTA
66 AACTTGGTTTCCATA-TTGATATATATGAAAAAGCT-ACTGTTTATATCTATTTAGGACTTTTTA
* * ** *
14316030 TGCCATTAAAAGGCAAAATGCAAATTTGATATTATTGTTCTATTTTAATAGTTTGGATAGCTTCA
129 GGCCGTTAAAAGAAAAAATACAAATTTGATATTATTGTTCTATTTTAATAGTTTGGATAGCTTCA
*
14316095 ATACATGATATTAAACTTGTCCGAATGATTGAACTTGGTTTCTA-AGGTTGATATGTGTGAAAAA
194 ATACATGATATTAAACTTGTCCGAATGATTGAACTTGGTTTCTACA-GTTGATATGTATGAAAAA
** * * * *
14316159 GTTATCATTTATGTCTATTTAGGATTATTTTTGCATTTAAAAGGCAAAAATACAAATTTGCTA
258 GTTATTGTTTACGTATGTTTAGGATT-TTTTTGCATTTAAAAGGCAAAAATACAAAATTGCTA
* * * * *
14316222 TTATTATTCTATTTTAACAGTTTGGATGGCTTCAATATATGATATTAAACTTTTTCAAATGATTG
1 TTATTGTTCTATTTTAACAATTTGGATAGCTTCAATACATGATATTAAACTTGTTCAAATGATTG
* *
14316287 AACTTGGTTATCACA-ATTGATATATATGAAAAAACTACTGTTTATCTCTATTTAGGA-TTTTTC
66 AACTTGGTT-TC-CATATTGATATATATGAAAAAGCTACTGTTTATATCTATTTAGGACTTTTT-
* * * * *
14316350 AGGCCGTTAAAAAGAAAAAAATACAAATTTGTTGTTATTATTTTGTTTTAATAGTTTGGATAGCT
128 AGGCCGTT-AAAAG-AAAAAATACAAATTTGATATTATTGTTCTATTTTAATAGTTTGGATAGCT
* ** * *
14316415 TCAATACATGATATTAAACTTTTTTGAATGATTGAAATTGGTTT-TCACAGTTGATATATATGAA
191 TCAATACATGATATTAAACTTGTCCGAATGATTGAACTTGGTTTCT-ACAGTTGATATGTATGAA
* * * *
14316479 AAAGTTGTTGTTTACCTTTGTTTAGGATTTTTTTTGTCA-TTAAAAGGCAAAAATACAAAGTTGC
255 AAAGTTATTGTTTACGTATGTTTAGGA-TTTTTTTG-CATTTAAAAGGCAAAAATACAAAATTGC
14316543 TA
318 TA
* *
14316545 TTATTGTTCTGTTGTAACAATTTGGATAGCTTCAATACATGATATTAAACTTGTTCAAATGATTG
1 TTATTGTTCTATTTTAACAATTTGGATAGCTTCAATACATGATATTAAACTTGTTCAAATGATTG
* *
14316610 AATTTGGTTTCCATGATTGATATATGTGAAA
66 AACTTGGTTTCCAT-ATTGATATATATGAAA
14316641 GGCCAAAATG
Statistics
Matches: 616, Mismatches: 105, Indels: 35
0.81 0.14 0.05
Matches are distributed among these distances:
319 5 0.01
320 245 0.40
321 26 0.04
322 105 0.17
323 230 0.37
324 5 0.01
ACGTcount: A:0.33, C:0.10, G:0.15, T:0.42
Consensus pattern (319 bp):
TTATTGTTCTATTTTAACAATTTGGATAGCTTCAATACATGATATTAAACTTGTTCAAATGATTG
AACTTGGTTTCCATATTGATATATATGAAAAAGCTACTGTTTATATCTATTTAGGACTTTTTAGG
CCGTTAAAAGAAAAAATACAAATTTGATATTATTGTTCTATTTTAATAGTTTGGATAGCTTCAAT
ACATGATATTAAACTTGTCCGAATGATTGAACTTGGTTTCTACAGTTGATATGTATGAAAAAGTT
ATTGTTTACGTATGTTTAGGATTTTTTTGCATTTAAAAGGCAAAAATACAAAATTGCTA
Found at i:14320565 original size:12 final size:12
Alignment explanation
Indices: 14320545--14320594 Score: 52
Period size: 11 Copynumber: 4.3 Consensus size: 12
14320535 TAATGAAAAT
*
14320545 AAATAAATAATA
1 AAATCAATAATA
14320557 AAATCAATAA-A
1 AAATCAATAATA
14320568 AAATCAA-AATA
1 AAATCAATAATA
*
14320579 AAA-CAAAAATCA
1 AAATCAATAAT-A
14320591 AAAT
1 AAAT
14320595 ATAAAATAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 7
0.80 0.02 0.17
Matches are distributed among these distances:
10 5 0.15
11 15 0.45
12 13 0.39
ACGTcount: A:0.74, C:0.08, G:0.00, T:0.18
Consensus pattern (12 bp):
AAATCAATAATA
Found at i:14320565 original size:16 final size:17
Alignment explanation
Indices: 14320535--14320595 Score: 63
Period size: 17 Copynumber: 3.6 Consensus size: 17
14320525 ATAAATTACT
*
14320535 TAATGAAAATAAATAAA
1 TAATCAAAATAAATAAA
*
14320552 TAAT-AAAATCAATAAA
1 TAATCAAAATAAATAAA
*
14320568 AAATCAAAATAAA-ACAA
1 TAATCAAAATAAATA-AA
*
14320585 AAATCAAAATA
1 TAATCAAAATA
14320596 TAAAATAAAT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
16 15 0.38
17 24 0.62
ACGTcount: A:0.72, C:0.07, G:0.02, T:0.20
Consensus pattern (17 bp):
TAATCAAAATAAATAAA
Found at i:14320581 original size:11 final size:11
Alignment explanation
Indices: 14320540--14320623 Score: 50
Period size: 11 Copynumber: 7.4 Consensus size: 11
14320530 TTACTTAATG
*
14320540 AAAAT-AAATA
1 AAAATAAAATC
14320550 AATAATAAAATC
1 AA-AATAAAATC
14320562 AATAA-AAAATC
1 AA-AATAAAATC
14320573 AAAATAAAA-C
1 AAAATAAAATC
*
14320583 AAAAATCAAAATAT
1 -AAAAT-AAAAT-C
14320597 AAAATAAATAT-
1 AAAATAAA-ATC
*
14320608 AAAATGAAAATG
1 AAAAT-AAAATC
14320620 AAAA
1 AAAA
14320624 AAATAAAAAA
Statistics
Matches: 62, Mismatches: 2, Indels: 18
0.76 0.02 0.22
Matches are distributed among these distances:
10 5 0.08
11 27 0.44
12 23 0.37
13 7 0.11
ACGTcount: A:0.74, C:0.05, G:0.02, T:0.19
Consensus pattern (11 bp):
AAAATAAAATC
Found at i:14320617 original size:17 final size:17
Alignment explanation
Indices: 14320540--14320618 Score: 51
Period size: 17 Copynumber: 4.6 Consensus size: 17
14320530 TTACTTAATG
14320540 AAAAT-AAATAAATAAT-
1 AAAATAAAATAAAT-ATC
14320556 AAAATCAATAA-AAA-ATC
1 AAAAT-AA-AATAAATATC
* *
14320573 AAAATAAAACAAAAATC
1 AAAATAAAATAAATATC
14320590 AAAATATAAAATAAATAT-
1 -AAA-ATAAAATAAATATC
14320608 AAAATGAAAAT
1 AAAAT-AAAAT
14320619 GAAAAAAATA
Statistics
Matches: 52, Mismatches: 2, Indels: 17
0.73 0.03 0.24
Matches are distributed among these distances:
15 2 0.04
16 14 0.27
17 16 0.31
18 7 0.13
19 13 0.25
ACGTcount: A:0.73, C:0.05, G:0.01, T:0.20
Consensus pattern (17 bp):
AAAATAAAATAAATATC
Found at i:14320635 original size:24 final size:26
Alignment explanation
Indices: 14320597--14320647 Score: 70
Period size: 24 Copynumber: 2.0 Consensus size: 26
14320587 ATCAAAATAT
* *
14320597 AAAATAAATATAAAATGAAAATGAAA
1 AAAATAAATATAAAAAGAAAAAGAAA
14320623 AAAATAAA-A-AAAAAGAAAAAGAAA
1 AAAATAAATATAAAAAGAAAAAGAAA
14320647 A
1 A
14320648 CCTACAATCG
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 14 0.61
25 1 0.04
26 8 0.35
ACGTcount: A:0.80, C:0.00, G:0.08, T:0.12
Consensus pattern (26 bp):
AAAATAAATATAAAAAGAAAAAGAAA
Found at i:14321481 original size:3 final size:3
Alignment explanation
Indices: 14321475--14321597 Score: 81
Period size: 3 Copynumber: 44.3 Consensus size: 3
14321465 AAAAAAACAA
* * * *
14321475 AAT AAT AAT AAT AAT AAT -AC AAT ATAT TAT AAT -AT TAT CAT ATAT
1 AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT AAT AAT A-AT
* *
14321520 TAT AAT AAT -AT AAT -AT AAT -AT AAT -AT AAT -AT AAT AGT AAT AA-
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
*
14321562 AAT AAC AAT -AT AAT -AT AAT -AT AAT AAT AAT -AT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
14321598 CTAGTTAATA
Statistics
Matches: 94, Mismatches: 12, Indels: 28
0.70 0.09 0.21
Matches are distributed among these distances:
2 23 0.24
3 67 0.71
4 4 0.04
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.37
Consensus pattern (3 bp):
AAT
Found at i:14321509 original size:8 final size:8
Alignment explanation
Indices: 14321498--14321597 Score: 56
Period size: 8 Copynumber: 11.4 Consensus size: 8
14321488 ATAATACAAT
14321498 ATATTATA
1 ATATTATA
14321506 ATATTATCA
1 ATATTAT-A
14321515 TATATTATA
1 -ATATTATA
*
14321524 ATAATATA
1 ATATTATA
14321532 ATATAATATA
1 ATAT--TATA
14321542 ATATAATATA
1 ATAT--TATA
*
14321552 ATAGTAATA
1 ATA-TTATA
* * *
14321561 AAATAACA
1 ATATTATA
14321569 ATATAATATA
1 ATAT--TATA
*
14321579 ATATAATA
1 ATATTATA
*
14321587 ATAATATA
1 ATATTATA
14321595 ATA
1 ATA
14321598 CTAGTTAATA
Statistics
Matches: 74, Mismatches: 11, Indels: 14
0.75 0.11 0.14
Matches are distributed among these distances:
8 36 0.49
9 7 0.09
10 30 0.41
11 1 0.01
ACGTcount: A:0.58, C:0.02, G:0.01, T:0.39
Consensus pattern (8 bp):
ATATTATA
Found at i:14321532 original size:5 final size:5
Alignment explanation
Indices: 14321476--14321597 Score: 120
Period size: 5 Copynumber: 23.2 Consensus size: 5
14321466 AAAAAACAAA
* * * *
14321476 ATAAT AATAAT AATAAT ACAAT ATATT ATAAT ATTAT CAT-AT ATTAT
1 ATAAT -ATAAT -ATAAT ATAAT ATAAT ATAAT ATAAT -ATAAT ATAAT
* *
14321523 AATAAT ATAAT ATAAT ATAAT ATAAT ATAAT AGTAAT AAAAT AACAAT
1 -ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT A-TAAT ATAAT -ATAAT
14321571 ATAAT ATAAT ATAAT AATAAT ATAAT A
1 ATAAT ATAAT ATAAT -ATAAT ATAAT A
14321598 CTAGTTAATA
Statistics
Matches: 101, Mismatches: 9, Indels: 13
0.82 0.07 0.11
Matches are distributed among these distances:
4 2 0.02
5 68 0.67
6 31 0.31
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.38
Consensus pattern (5 bp):
ATAAT
Found at i:14321575 original size:32 final size:32
Alignment explanation
Indices: 14321477--14321597 Score: 79
Period size: 31 Copynumber: 3.8 Consensus size: 32
14321467 AAAAACAAAA
*
14321477 TAATAATAATAATAAT-ACAATATATTATAATA
1 TAATAATAATAA-AATAACAATATAATATAATA
* * ** *
14321509 TTATCAT-ATATTATAATAATATAATATAATA
1 TAATAATAATAAAATAACAATATAATATAATA
* ** * *
14321540 TAAT-ATAATATAATAGTAATAAAATAACAATA
1 TAATAATAATAAAATAACAATATAAT-ATAATA
* *
14321572 TAAT-ATAATATAATAATAATATAATA
1 TAATAATAATAAAATAACAATATAATA
14321598 CTAGTTAATA
Statistics
Matches: 73, Mismatches: 13, Indels: 7
0.78 0.14 0.08
Matches are distributed among these distances:
30 4 0.05
31 36 0.49
32 33 0.45
ACGTcount: A:0.59, C:0.02, G:0.01, T:0.38
Consensus pattern (32 bp):
TAATAATAATAAAATAACAATATAATATAATA
Found at i:14321584 original size:18 final size:19
Alignment explanation
Indices: 14321479--14321597 Score: 90
Period size: 18 Copynumber: 6.3 Consensus size: 19
14321469 AAACAAAATA
14321479 ATAATAATAATA-ATACAAT
1 ATAAT-ATAATATATACAAT
*
14321498 ATATTATAATAT-TATC-AT
1 ATAATATAATATATA-CAAT
* *
14321516 ATATTATAATA-ATATAAT
1 ATAATATAATATATACAAT
*
14321534 ATAATATAATATAATATAAT
1 ATAATATAATAT-ATACAAT
14321554 AGTAATA-AA-ATA-ACAAT
1 A-TAATATAATATATACAAT
*
14321571 ATAATATAATATAATAATAAT
1 ATAATATAATAT-AT-ACAAT
14321592 ATAATA
1 ATAATA
14321598 CTAGTTAATA
Statistics
Matches: 83, Mismatches: 5, Indels: 22
0.75 0.05 0.20
Matches are distributed among these distances:
16 5 0.06
17 7 0.08
18 38 0.46
19 8 0.10
20 10 0.12
21 15 0.18
ACGTcount: A:0.59, C:0.03, G:0.01, T:0.38
Consensus pattern (19 bp):
ATAATATAATATATACAAT
Found at i:14321917 original size:55 final size:56
Alignment explanation
Indices: 14321786--14321937 Score: 134
Period size: 55 Copynumber: 2.8 Consensus size: 56
14321776 AAAAGTGATC
* * * * ** *
14321786 TAGACCGAGCCAAGATCAAATGACCAAGATT-AAACTATAAGTCT-GAAAACTAACT
1 TAGATCGAGTCAAGATCAAACGACCAAGATTGAATC-GCAAGTTTGGAAAACTAACT
* * * *
14321841 TGGATCGAGTCAAGGTTAAACGA-CTAGAATTGAATCGCAAGTTTGGAAAACTAAC-
1 TAGATCGAGTCAAGATCAAACGACCAAG-ATTGAATCGCAAGTTTGGAAAACTAACT
*
14321896 TAGA-CTGAGTCAAGATCAAACGACCAAGATTGAATTGCAAGT
1 TAGATC-GAGTCAAGATCAAACGACCAAGATTGAATCGCAAGT
14321938 CTGAAAAATT
Statistics
Matches: 76, Mismatches: 16, Indels: 10
0.75 0.16 0.10
Matches are distributed among these distances:
54 4 0.05
55 56 0.74
56 16 0.21
ACGTcount: A:0.41, C:0.17, G:0.20, T:0.22
Consensus pattern (56 bp):
TAGATCGAGTCAAGATCAAACGACCAAGATTGAATCGCAAGTTTGGAAAACTAACT
Found at i:14322206 original size:56 final size:56
Alignment explanation
Indices: 14322032--14322239 Score: 193
Period size: 56 Copynumber: 3.7 Consensus size: 56
14322022 TTGGATGACT
* * * * *
14322032 AGGATTGAATCGTAAGTGTAGAAAATTAACCTGGATCGAGTTGAGGTCAAACAATC
1 AGGATTGAATTGCAAGTCTAGAAAACTAACCTGGATCGAGTTGAGGTCAAACGATC
* * * * *
14322088 AGGATTGAACTGCAAGTCTGGAAAACTTACCTGGATCGAGTTAAAGTCAAACGATC
1 AGGATTGAATTGCAAGTCTAGAAAACTAACCTGGATCGAGTTGAGGTCAAACGATC
* * * * * * *
14322144 AAGATTGAATTGCAAGTCTAAAAAACTAACCTAGATCGAGCTGAGGTTAAATGATT
1 AGGATTGAATTGCAAGTCTAGAAAACTAACCTGGATCGAGTTGAGGTCAAACGATC
* **** * *
14322200 GGGATTGAACCATAAGTCTAGAAAAC-AATCTGGATGGAGT
1 AGGATTGAATTGCAAGTCTAGAAAACTAACCTGGATCGAGT
14322240 ATAAATTGGA
Statistics
Matches: 119, Mismatches: 33, Indels: 1
0.78 0.22 0.01
Matches are distributed among these distances:
55 10 0.08
56 109 0.92
ACGTcount: A:0.38, C:0.14, G:0.24, T:0.25
Consensus pattern (56 bp):
AGGATTGAATTGCAAGTCTAGAAAACTAACCTGGATCGAGTTGAGGTCAAACGATC
Found at i:14322405 original size:49 final size:49
Alignment explanation
Indices: 14322334--14322440 Score: 198
Period size: 49 Copynumber: 2.2 Consensus size: 49
14322324 AAGTTAAAAA
*
14322334 AATGAT-CTAGACGAAGCTGAGATCAAAACAAGTGATGAATTATAATGC
1 AATGATACAAGACGAAGCTGAGATCAAAACAAGTGATGAATTATAATGC
14322382 AATGATACAAGACGAAGCTGAGATCAAAACAAGTGATGAATTATAATGC
1 AATGATACAAGACGAAGCTGAGATCAAAACAAGTGATGAATTATAATGC
14322431 AATGATACAA
1 AATGATACAA
14322441 ACGCATGCCT
Statistics
Matches: 57, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
48 6 0.11
49 51 0.89
ACGTcount: A:0.47, C:0.12, G:0.20, T:0.21
Consensus pattern (49 bp):
AATGATACAAGACGAAGCTGAGATCAAAACAAGTGATGAATTATAATGC
Found at i:14332907 original size:5 final size:5
Alignment explanation
Indices: 14332891--14332969 Score: 59
Period size: 5 Copynumber: 13.8 Consensus size: 5
14332881 AAAATCAGTA
*
14332891 AAAAT GAAAAT AAAAT AAAAGT CAAGATAT AAAAT AAATAT AAAAAT CAAAT
1 AAAAT -AAAAT AAAAT AAAA-T -AA-A-AT AAAAT AAA-AT -AAAAT AAAAT
14332943 CAAATCAT AAAAT AAAAT AAAAT AAAA
1 -AAA--AT AAAAT AAAAT AAAAT AAAA
14332970 ATAGAAAAAA
Statistics
Matches: 62, Mismatches: 2, Indels: 19
0.75 0.02 0.23
Matches are distributed among these distances:
5 34 0.55
6 13 0.21
7 10 0.16
8 4 0.06
9 1 0.02
ACGTcount: A:0.71, C:0.05, G:0.04, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:14332934 original size:30 final size:28
Alignment explanation
Indices: 14332865--14332969 Score: 103
Period size: 30 Copynumber: 3.7 Consensus size: 28
14332855 TTACTTAATG
14332865 AAAAT-AAATAAATAATAAAATC-AG-TA-
1 AAAATAAAAT-AA-AATAAAATCAAGATAT
14332891 AAAATGAAAATAAAATAAAAGTCAAGATAT
1 AAAAT-AAAATAAAATAAAA-TCAAGATAT
*
14332921 AAAATAAATATAAAAATCAAATCAA-ATCAT
1 AAAATAAA-AT-AAAATAAAATCAAGAT-AT
14332951 AAAATAAAATAAAATAAAA
1 AAAATAAAATAAAATAAAA
14332970 ATAGAAAAAA
Statistics
Matches: 68, Mismatches: 2, Indels: 16
0.79 0.02 0.19
Matches are distributed among these distances:
26 12 0.18
27 4 0.06
28 14 0.21
29 9 0.13
30 21 0.31
31 8 0.12
ACGTcount: A:0.70, C:0.05, G:0.04, T:0.21
Consensus pattern (28 bp):
AAAATAAAATAAAATAAAATCAAGATAT
Found at i:14333847 original size:19 final size:17
Alignment explanation
Indices: 14333820--14333887 Score: 75
Period size: 18 Copynumber: 3.8 Consensus size: 17
14333810 AGTAAAAATG
14333820 AAAATAAAATAAAAGTCA
1 AAAATAAAATAAAA-TCA
14333838 AAATATAAAATAAATAT-A
1 AAA-ATAAAATAAA-ATCA
* *
14333856 AAAATCAAATCAAATCA
1 AAAATAAAATAAAATCA
14333873 TAAAATAAAATAAAA
1 -AAAATAAAATAAAA
14333888 ATAGAAAAAA
Statistics
Matches: 42, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
16 2 0.05
17 9 0.21
18 19 0.45
19 11 0.26
20 1 0.02
ACGTcount: A:0.72, C:0.06, G:0.01, T:0.21
Consensus pattern (17 bp):
AAAATAAAATAAAATCA
Found at i:14333857 original size:30 final size:28
Alignment explanation
Indices: 14333814--14333887 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 28
14333804 AAAATTAGTA
14333814 AAAATGAAAATAAAATAAAAGTCAAAAT-AT
1 AAAAT-AAAATAAAATAAAA-TC-AAATCAT
*
14333844 AAAATAAATATAAAAATCAAATCAAATCAT
1 AAAATAAA-AT-AAAATAAAATCAAATCAT
14333874 AAAATAAAATAAAA
1 AAAATAAAATAAAA
14333888 ATAGAAAAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 8
0.82 0.02 0.16
Matches are distributed among these distances:
28 4 0.10
29 9 0.22
30 19 0.47
31 8 0.20
ACGTcount: A:0.72, C:0.05, G:0.03, T:0.20
Consensus pattern (28 bp):
AAAATAAAATAAAATAAAATCAAATCAT
Found at i:14333896 original size:19 final size:18
Alignment explanation
Indices: 14333820--14333896 Score: 59
Period size: 19 Copynumber: 4.2 Consensus size: 18
14333810 AGTAAAAATG
*
14333820 AAAATAAAATAAAAGTCAA
1 AAAATAAAATAAAAAT-AA
* *
14333839 AATATAAAATAAATAT-A
1 AAAATAAAATAAAAATAA
* * *
14333856 AAAATCAAAT-CAAATCAT
1 AAAATAAAATAAAAAT-AA
14333874 AAAATAAAATAAAAATAGA
1 AAAATAAAATAAAAATA-A
14333893 AAAA
1 AAAA
14333897 AAACTTGCGA
Statistics
Matches: 43, Mismatches: 11, Indels: 8
0.69 0.18 0.13
Matches are distributed among these distances:
16 3 0.07
17 9 0.21
18 10 0.23
19 21 0.49
ACGTcount: A:0.73, C:0.05, G:0.03, T:0.19
Consensus pattern (18 bp):
AAAATAAAATAAAAATAA
Found at i:14333899 original size:11 final size:11
Alignment explanation
Indices: 14333788--14333887 Score: 62
Period size: 12 Copynumber: 8.8 Consensus size: 11
14333778 TTACTTAATG
14333788 AAAAT-AAATA
1 AAAATAAAATA
*
14333798 AATAATAAAATT
1 AA-AATAAAATA
** *
14333810 AGTA-AAAATG
1 AAAATAAAATA
14333820 AAAATAAAATA
1 AAAATAAAATA
*
14333831 AAAGTCAAAATA
1 AAAAT-AAAATA
14333843 TAAAATAAATATA
1 -AAAATAAA-ATA
*
14333856 AAAATCAAATCA
1 AAAATAAAAT-A
*
14333868 AATCATAAAAT-
1 AA-AATAAAATA
14333879 AAAATAAAA
1 AAAATAAAA
14333888 ATAGAAAAAA
Statistics
Matches: 69, Mismatches: 13, Indels: 16
0.70 0.13 0.16
Matches are distributed among these distances:
10 15 0.22
11 17 0.25
12 24 0.35
13 13 0.19
ACGTcount: A:0.71, C:0.04, G:0.03, T:0.22
Consensus pattern (11 bp):
AAAATAAAATA
Found at i:14334750 original size:3 final size:3
Alignment explanation
Indices: 14334722--14334846 Score: 72
Period size: 3 Copynumber: 44.3 Consensus size: 3
14334712 AGGAAAGAAG
* * * *
14334722 AAT AAA AAT AA- AAT AAA AATT AAT AAT AAT AGT -AT AAT AAT AGT
1 AAT AAT AAT AAT AAT AAT AA-T AAT AAT AAT AAT AAT AAT AAT AAT
* * * *
14334766 AAT AAT AAT -AC AAT -AT ACT AA- AAT AAT ATT ATAT ACT -AT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A-AT AAT AAT AAT
* *
14334808 -AT AAT AAT AAA AAA AAT AAT -AT AAT -AT AAT -AT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
14334847 TTAGTAAACA
Statistics
Matches: 92, Mismatches: 18, Indels: 24
0.69 0.13 0.18
Matches are distributed among these distances:
2 17 0.18
3 71 0.77
4 4 0.04
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:14334758 original size:11 final size:12
Alignment explanation
Indices: 14334742--14334775 Score: 61
Period size: 11 Copynumber: 2.9 Consensus size: 12
14334732 AAATAAAAAT
14334742 TAATAATAATAG
1 TAATAATAATAG
14334754 T-ATAATAATAG
1 TAATAATAATAG
14334765 TAATAATAATA
1 TAATAATAATA
14334776 CAATATACTA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
11 11 0.52
12 10 0.48
ACGTcount: A:0.59, C:0.00, G:0.06, T:0.35
Consensus pattern (12 bp):
TAATAATAATAG
Found at i:14334805 original size:5 final size:5
Alignment explanation
Indices: 14334758--14334843 Score: 70
Period size: 5 Copynumber: 17.2 Consensus size: 5
14334748 TAATAGTATA
* * * *
14334758 ATAAT AGTAAT AATAAT ACAAT ATACT A-AA- ATAAT ATTAT ATACT ATAAT
1 ATAAT A-TAAT -ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT
* *
14334808 ATAAT AATAA- AAAAA ATAAT ATAAT ATAAT ATAAT A
1 ATAAT -ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT A
14334844 ATATTAGTAA
Statistics
Matches: 64, Mismatches: 11, Indels: 12
0.74 0.13 0.14
Matches are distributed among these distances:
3 1 0.02
4 6 0.09
5 44 0.69
6 12 0.19
7 1 0.02
ACGTcount: A:0.62, C:0.03, G:0.01, T:0.34
Consensus pattern (5 bp):
ATAAT
Found at i:14336190 original size:25 final size:26
Alignment explanation
Indices: 14336141--14336190 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
14336131 AAGATTTATC
14336141 ATAACATTCCTTCTAAAAATAATAAA
1 ATAACATTCCTTCTAAAAATAATAAA
14336167 ATAACATT-CTT-TATAAAATAATAA
1 ATAACATTCCTTCTA-AAAATAATAA
14336191 TTACTGATGA
Statistics
Matches: 23, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
24 2 0.09
25 13 0.57
26 8 0.35
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (26 bp):
ATAACATTCCTTCTAAAAATAATAAA
Found at i:14336901 original size:3 final size:3
Alignment explanation
Indices: 14336893--14336927 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
14336883 TTCTTAAATT
14336893 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TT
14336928 TTTACTTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (3 bp):
TTA
Found at i:14338568 original size:20 final size:21
Alignment explanation
Indices: 14338543--14338581 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
14338533 ATTTTTTTTT
14338543 CTTTTTT-TGTAATTTAATCC
1 CTTTTTTATGTAATTTAATCC
14338563 CTTTTTTATGTAATTTAAT
1 CTTTTTTATGTAATTTAAT
14338582 TTTTGTAATT
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.23, C:0.10, G:0.05, T:0.62
Consensus pattern (21 bp):
CTTTTTTATGTAATTTAATCC
Found at i:14338595 original size:13 final size:14
Alignment explanation
Indices: 14338566--14338598 Score: 50
Period size: 13 Copynumber: 2.4 Consensus size: 14
14338556 TTAATCCCTT
14338566 TTTTATGTAATTTAA
1 TTTT-TGTAATTTAA
14338581 TTTTTGTAA-TTAA
1 TTTTTGTAATTTAA
14338594 TTTTT
1 TTTTT
14338599 ACATATATTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 9 0.50
14 5 0.28
15 4 0.22
ACGTcount: A:0.27, C:0.00, G:0.06, T:0.67
Consensus pattern (14 bp):
TTTTTGTAATTTAA
Found at i:14342335 original size:20 final size:20
Alignment explanation
Indices: 14342310--14342350 Score: 66
Period size: 20 Copynumber: 2.0 Consensus size: 20
14342300 TCTAATTTAA
14342310 AATTTGTTGGT-GAGACATAT
1 AATTTG-TGGTCGAGACATAT
14342330 AATTTGTGGTCGAGACATAT
1 AATTTGTGGTCGAGACATAT
14342350 A
1 A
14342351 TCTTATCCAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.32, C:0.07, G:0.24, T:0.37
Consensus pattern (20 bp):
AATTTGTGGTCGAGACATAT
Found at i:14346380 original size:93 final size:92
Alignment explanation
Indices: 14346189--14346402 Score: 302
Period size: 93 Copynumber: 2.3 Consensus size: 92
14346179 ATATTACAAT
* * * * *
14346189 AATTTAGATAGTTAAATACAATTTAAAATTTTTATTTATAAATAGGTTGAGATATCAACTTTCAA
1 AATTT-GAAAGTTAAATATAATTTTAAATTTTTATTCACAAATAGGTTGAGATATCAACTTTCAA
* *
14346254 TGACGACTAATAATGCATATACTAAATC
65 TGACGACTAATAATACATATACTAAAAC
* *
14346282 AATTTGGACAGTTAAATATAATTTTAAATTTTTATTCACAAATAGGTTGAGATTTCAACTTTCAA
1 AATTT-GAAAGTTAAATATAATTTTAAATTTTTATTCACAAATAGGTTGAGATATCAACTTTCAA
14346347 TGACGACTAATAATACATATACTAAAAC
65 TGACGACTAATAATACATATACTAAAAC
* *
14346375 AATTTGAAATTTTAAAGATAATTTTAAA
1 AATTTGAAA-GTTAAATATAATTTTAAA
14346403 AATATATATA
Statistics
Matches: 108, Mismatches: 12, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
92 3 0.03
93 105 0.97
ACGTcount: A:0.43, C:0.09, G:0.09, T:0.38
Consensus pattern (92 bp):
AATTTGAAAGTTAAATATAATTTTAAATTTTTATTCACAAATAGGTTGAGATATCAACTTTCAAT
GACGACTAATAATACATATACTAAAAC
Found at i:14347271 original size:2 final size:2
Alignment explanation
Indices: 14347264--14347304 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
14347254 AACTTAATCT
* *
14347264 TA TA TA TA TA TA TA TA TA TA TG TA TG 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 TA TA T
14347305 GTTCATGTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.44, C:0.00, G:0.05, T:0.51
Consensus pattern (2 bp):
TA
Found at i:14350391 original size:18 final size:18
Alignment explanation
Indices: 14350368--14350413 Score: 58
Period size: 18 Copynumber: 2.6 Consensus size: 18
14350358 TCTCTTATTT
*
14350368 TTTATTATTTA-TTCTTAA
1 TTTATTATTTAGCTCTT-A
*
14350386 TTTATTAATTAGCTCTTA
1 TTTATTATTTAGCTCTTA
14350404 TTTATTATTT
1 TTTATTATTT
14350414 TTTTTATAAC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
18 20 0.83
19 4 0.17
ACGTcount: A:0.26, C:0.07, G:0.02, T:0.65
Consensus pattern (18 bp):
TTTATTATTTAGCTCTTA
Found at i:14350623 original size:23 final size:24
Alignment explanation
Indices: 14350589--14350640 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
14350579 ATTTTTATTA
14350589 ATTTTTCTATTATAATT-AAGTTT
1 ATTTTTCTATTATAATTAAAGTTT
**
14350612 ATTTTT-TAATTATTTTTAAAGTTT
1 ATTTTTCT-ATTATAATTAAAGTTT
14350636 ATTTT
1 ATTTT
14350641 AAAAATTAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
22 1 0.04
23 13 0.52
24 11 0.44
ACGTcount: A:0.29, C:0.02, G:0.04, T:0.65
Consensus pattern (24 bp):
ATTTTTCTATTATAATTAAAGTTT
Found at i:14351682 original size:7 final size:7
Alignment explanation
Indices: 14351631--14351688 Score: 52
Period size: 7 Copynumber: 8.7 Consensus size: 7
14351621 TTTTTTATTC
14351631 TATTTTG
1 TATTTTG
*
14351638 T-TTTTT
1 TATTTTG
*
14351644 TTTTTTGG
1 TATTTT-G
*
14351652 TATCTTG
1 TATTTTG
14351659 TATTTTG
1 TATTTTG
14351666 -ATTTT-
1 TATTTTG
14351671 T-TTTTG
1 TATTTTG
14351677 TATTTTG
1 TATTTTG
14351684 TATTT
1 TATTT
14351689 AATAATAATT
Statistics
Matches: 41, Mismatches: 5, Indels: 10
0.73 0.09 0.18
Matches are distributed among these distances:
5 4 0.10
6 11 0.27
7 22 0.54
8 4 0.10
ACGTcount: A:0.10, C:0.02, G:0.12, T:0.76
Consensus pattern (7 bp):
TATTTTG
Found at i:14351773 original size:36 final size:36
Alignment explanation
Indices: 14351732--14351807 Score: 116
Period size: 36 Copynumber: 2.1 Consensus size: 36
14351722 GTCCATAAAT
* *
14351732 ATCATGTAATAAATATAAAATCATACCATATAATAA
1 ATCATGCAATAAATATAAAATCATACCATACAATAA
**
14351768 ATCATGCAATAAATATAAAATCATGGCATACAATAA
1 ATCATGCAATAAATATAAAATCATACCATACAATAA
14351804 ATCA
1 ATCA
14351808 GATAAAAATT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
36 36 1.00
ACGTcount: A:0.54, C:0.13, G:0.05, T:0.28
Consensus pattern (36 bp):
ATCATGCAATAAATATAAAATCATACCATACAATAA
Found at i:14351843 original size:45 final size:44
Alignment explanation
Indices: 14351768--14351886 Score: 114
Period size: 45 Copynumber: 2.5 Consensus size: 44
14351758 CATATAATAA
*
14351768 ATCATGCAATAAATATAAAATCATGGCATACAATAAATCA-GATAAAAATT
1 ATCATGCAATAAATAT--AAT-AT--CATACAAAAAATCATG-TAAAAA-T
* *
14351818 ATCATGCAATAAATATAATATCATACAAAAAATCATGTCAAGAT
1 ATCATGCAATAAATATAATATCATACAAAAAATCATGTAAAAAT
* *
14351862 ATCATGCAATGAAAAATAAAATCAT
1 ATCATGCAAT-AAATATAATATCAT
14351887 GCCAAAATCC
Statistics
Matches: 62, Mismatches: 5, Indels: 9
0.82 0.07 0.12
Matches are distributed among these distances:
44 11 0.18
45 29 0.47
46 1 0.02
47 2 0.03
48 3 0.05
50 16 0.26
ACGTcount: A:0.54, C:0.13, G:0.08, T:0.26
Consensus pattern (44 bp):
ATCATGCAATAAATATAATATCATACAAAAAATCATGTAAAAAT
Found at i:14351952 original size:20 final size:20
Alignment explanation
Indices: 14351927--14352107 Score: 90
Period size: 19 Copynumber: 8.9 Consensus size: 20
14351917 AGTATAATAC
14351927 AATAATATAAAATATCATGT
1 AATAATATAAAATATCATGT
*
14351947 AATAATATAAAATATCATAT
1 AATAATATAAAATATCATGT
* * * *
14351967 AA-AATATTAATTACCATAT
1 AATAATATAAAATATCATGT
*
14351986 -A-AATATAATATTAATCA--T
1 AATAATATAA-AAT-ATCATGT
*
14352004 ACA-AATATAATATAATCATG-
1 A-ATAATATAAAAT-ATCATGT
* *
14352024 CAT-ATATAATATAATCATGT
1 AATAATATAAAAT-ATCATGT
* * *
14352044 AAATATAATATAAATTATTATGC
1 --A-ATAATATAAAATATCATGT
* *
14352067 AATAATATTAAAATATTATGC
1 AATAATA-TAAAATATCATGT
14352088 AATAATATTAAAATATCATG
1 AATAATA-TAAAATATCATG
14352108 CAATTATCAT
Statistics
Matches: 132, Mismatches: 16, Indels: 25
0.76 0.09 0.14
Matches are distributed among these distances:
18 8 0.06
19 40 0.30
20 38 0.29
21 32 0.24
23 7 0.05
24 7 0.05
ACGTcount: A:0.54, C:0.07, G:0.03, T:0.36
Consensus pattern (20 bp):
AATAATATAAAATATCATGT
Found at i:14351998 original size:19 final size:19
Alignment explanation
Indices: 14351950--14352056 Score: 103
Period size: 19 Copynumber: 5.6 Consensus size: 19
14351940 ATCATGTAAT
*
14351950 AATATAAAAT-ATCATATAA
1 AATATAATATAATCATAT-A
*
14351969 AATATTAAT-T-ACCATATA
1 AATA-TAATATAATCATATA
*
14351987 AATATAATATTAATCATACA
1 AATATAATA-TAATCATATA
**
14352007 AATATAATATAATCATGCA
1 AATATAATATAATCATATA
* *
14352026 TATATAATATAATCATGTA
1 AATATAATATAATCATATA
14352045 AATATAATATAA
1 AATATAATATAA
14352057 ATTATTATGC
Statistics
Matches: 76, Mismatches: 8, Indels: 8
0.83 0.09 0.09
Matches are distributed among these distances:
17 4 0.05
18 5 0.07
19 49 0.64
20 18 0.24
ACGTcount: A:0.55, C:0.07, G:0.02, T:0.36
Consensus pattern (19 bp):
AATATAATATAATCATATA
Found at i:14352083 original size:21 final size:21
Alignment explanation
Indices: 14352048--14352111 Score: 103
Period size: 21 Copynumber: 3.1 Consensus size: 21
14352038 TCATGTAAAT
*
14352048 ATAATA-TAAATTATTATGCA
1 ATAATATTAAAATATTATGCA
14352068 ATAATATTAAAATATTATGCA
1 ATAATATTAAAATATTATGCA
*
14352089 ATAATATTAAAATATCATGCA
1 ATAATATTAAAATATTATGCA
14352110 AT
1 AT
14352112 TATCATACAA
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
20 6 0.15
21 35 0.85
ACGTcount: A:0.52, C:0.06, G:0.05, T:0.38
Consensus pattern (21 bp):
ATAATATTAAAATATTATGCA
Found at i:14352261 original size:20 final size:19
Alignment explanation
Indices: 14352193--14352297 Score: 91
Period size: 19 Copynumber: 5.7 Consensus size: 19
14352183 ATAAGTCACA
*
14352193 CAAATAAAT-ATAATCATA
1 CAAATAAATAATAATCATG
14352211 CAAAT-AATAAGTAATCAT-
1 CAAATAAATAA-TAATCATG
14352229 ---ATAAATAATAATCATG
1 CAAATAAATAATAATCATG
14352245 CAAATAAATATATAATCATG
1 CAAATAAATA-ATAATCATG
*
14352265 CAAACTAAGTGAAT--TCATG
1 CAAA-TAAAT-AATAATCATG
*
14352284 CAAATAAATTATAA
1 CAAATAAATAATAA
14352298 AATATTACTA
Statistics
Matches: 72, Mismatches: 3, Indels: 23
0.73 0.03 0.23
Matches are distributed among these distances:
15 9 0.12
16 5 0.07
17 5 0.07
18 10 0.14
19 23 0.32
20 13 0.18
21 6 0.08
22 1 0.01
ACGTcount: A:0.55, C:0.10, G:0.06, T:0.29
Consensus pattern (19 bp):
CAAATAAATAATAATCATG
Found at i:14352810 original size:19 final size:21
Alignment explanation
Indices: 14352788--14352832 Score: 67
Period size: 21 Copynumber: 2.2 Consensus size: 21
14352778 CAATTAATTG
14352788 AAAAATTC-AA-AATTTGTAA
1 AAAAATTCAAACAATTTGTAA
*
14352807 AAAAATTCAAACAATTTTTAA
1 AAAAATTCAAACAATTTGTAA
14352828 AAAAA
1 AAAAA
14352833 CCCAACAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
19 8 0.35
20 2 0.09
21 13 0.57
ACGTcount: A:0.62, C:0.07, G:0.02, T:0.29
Consensus pattern (21 bp):
AAAAATTCAAACAATTTGTAA
Found at i:14353474 original size:16 final size:16
Alignment explanation
Indices: 14353453--14353483 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
14353443 TAAGAAAATC
*
14353453 CTTTTTTTTTCTTTTA
1 CTTTTTTTTACTTTTA
14353469 CTTTTTTTTACTTTT
1 CTTTTTTTTACTTTT
14353484 TGACTTTGAC
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:0.06, C:0.13, G:0.00, T:0.81
Consensus pattern (16 bp):
CTTTTTTTTACTTTTA
Found at i:14353528 original size:18 final size:17
Alignment explanation
Indices: 14353501--14353562 Score: 54
Period size: 18 Copynumber: 3.5 Consensus size: 17
14353491 GACTAAAGAA
*
14353501 AAATCAAAATTCAAATTC
1 AAATTAAAATT-AAATTC
*
14353519 AAATTGAAATTGAAATT-
1 AAATTAAAATT-AAATTC
*
14353536 ACAATTAAAATTAAAATC
1 A-AATTAAAATTAAATTC
*
14353554 AAAATAAAA
1 AAATTAAAA
14353563 AATTTTGGGC
Statistics
Matches: 36, Mismatches: 6, Indels: 5
0.77 0.13 0.11
Matches are distributed among these distances:
17 12 0.33
18 24 0.67
ACGTcount: A:0.61, C:0.08, G:0.03, T:0.27
Consensus pattern (17 bp):
AAATTAAAATTAAATTC
Found at i:14353956 original size:19 final size:19
Alignment explanation
Indices: 14353901--14353958 Score: 73
Period size: 20 Copynumber: 3.1 Consensus size: 19
14353891 AAGAGTCCAA
*
14353901 AATTCATAAAATATTCAA-
1 AATTCATAAAATAATCAAG
* *
14353919 AAGTCATAAAAAAACTCAAG
1 AATTCATAAAATAA-TCAAG
14353939 AATTCATAAAATAATCAAG
1 AATTCATAAAATAATCAAG
14353958 A
1 A
14353959 TTTGCAATGA
Statistics
Matches: 33, Mismatches: 5, Indels: 3
0.80 0.12 0.07
Matches are distributed among these distances:
18 11 0.33
19 10 0.30
20 12 0.36
ACGTcount: A:0.59, C:0.12, G:0.05, T:0.24
Consensus pattern (19 bp):
AATTCATAAAATAATCAAG
Found at i:14354127 original size:18 final size:18
Alignment explanation
Indices: 14354049--14354153 Score: 72
Period size: 18 Copynumber: 5.8 Consensus size: 18
14354039 TCATAAAAGG
14354049 TCAAGATTAT-CAAAGATT
1 TCAAGATT-TGCAAAGATT
*
14354067 TCAAGATTTGTAAAGATTT
1 TCAAGATTTGCAAAGA-TT
* *
14354086 TC-ATATTTGCAAA-AGT
1 TCAAGATTTGCAAAGATT
* *
14354102 CCTTAGATTTGCAAAGATT
1 TC-AAGATTTGCAAAGATT
* ** *
14354121 TCGAGATTCACAAAGGTT
1 TCAAGATTTGCAAAGATT
*
14354139 TCAAGATTCGCAAAG
1 TCAAGATTTGCAAAG
14354154 GTTCTAAGAT
Statistics
Matches: 68, Mismatches: 14, Indels: 10
0.74 0.15 0.11
Matches are distributed among these distances:
16 2 0.03
17 2 0.03
18 57 0.84
19 7 0.10
ACGTcount: A:0.37, C:0.13, G:0.16, T:0.33
Consensus pattern (18 bp):
TCAAGATTTGCAAAGATT
Found at i:14354154 original size:18 final size:18
Alignment explanation
Indices: 14354106--14354190 Score: 82
Period size: 18 Copynumber: 4.7 Consensus size: 18
14354096 AAAAGTCCTT
* * *
14354106 AGATTTGCAAAGATTTCG
1 AGATTCGCAAAGGTTTCA
*
14354124 AGATTCACAAAGGTTTCA
1 AGATTCGCAAAGGTTTCA
14354142 AGATTCGCAAAGG-TTCTA
1 AGATTCGCAAAGGTTTC-A
* * *
14354160 AGATTAGCAAAAGTTCCA
1 AGATTCGCAAAGGTTTCA
*
14354178 AGATTCGTAAAGG
1 AGATTCGCAAAGG
14354191 CTCCCAAAAT
Statistics
Matches: 54, Mismatches: 11, Indels: 4
0.78 0.16 0.06
Matches are distributed among these distances:
17 3 0.06
18 49 0.91
19 2 0.04
ACGTcount: A:0.38, C:0.14, G:0.21, T:0.27
Consensus pattern (18 bp):
AGATTCGCAAAGGTTTCA
Found at i:14354243 original size:17 final size:18
Alignment explanation
Indices: 14354221--14354518 Score: 118
Period size: 18 Copynumber: 16.9 Consensus size: 18
14354211 CCCAAGTTTT
14354221 ACAAAGATTTCAAGA-TC
1 ACAAAGATTTCAAGATTC
*
14354238 ACAAAGGTTTTC-AGA-TC
1 ACAAA-GATTTCAAGATTC
14354255 ACAAAG--TTCAAGATTC
1 ACAAAGATTTCAAGATTC
* *
14354271 ACAAA-AGTTCCAAAATTC
1 ACAAAGA-TTTCAAGATTC
14354289 ACAAAGA-TTCGAAGATTC
1 ACAAAGATTTC-AAGATTC
* ** *
14354307 ACAAATATCCCAAGATTT
1 ACAAAGATTTCAAGATTC
* * * *
14354325 GCAAAAAGTCCAAGATTC
1 ACAAAGATTTCAAGATTC
* *
14354343 ATATAGA-TTCTAAGATTC
1 ACAAAGATTTC-AAGATTC
* * *
14354361 ACAAAAATTACAAGATTT
1 ACAAAGATTTCAAGATTC
* * *
14354379 GCAATGACTTT-AAGATTT
1 ACAAAGA-TTTCAAGATTC
* * **
14354397 GCAAAAATCCCAAGATTC
1 ACAAAGATTTCAAGATTC
**
14354415 ACAAAGATCCCAAGATTC
1 ACAAAGATTTCAAGATTC
** * *
14354433 GTAAAAATTT-AATATT-
1 ACAAAGATTTCAAGATTC
** *
14354449 AGCAAAG-TTTTTAGATTT
1 A-CAAAGATTTCAAGATTC
** * *
14354467 GTAAAGATTTTAAGATTT
1 ACAAAGATTTCAAGATTC
14354485 ACAAAGATCTT-AAGATTC
1 ACAAAGAT-TTCAAGATTC
14354503 ACAAAGATTTCAAGAT
1 ACAAAGATTTCAAGAT
14354519 ATCATAATGT
Statistics
Matches: 210, Mismatches: 52, Indels: 37
0.70 0.17 0.12
Matches are distributed among these distances:
14 3 0.01
15 3 0.01
16 11 0.05
17 38 0.18
18 147 0.70
19 8 0.04
ACGTcount: A:0.44, C:0.15, G:0.12, T:0.29
Consensus pattern (18 bp):
ACAAAGATTTCAAGATTC
Found at i:14354290 original size:18 final size:17
Alignment explanation
Indices: 14354124--14354365 Score: 111
Period size: 18 Copynumber: 13.6 Consensus size: 17
14354114 AAAGATTTCG
*
14354124 AGATTCACAAAGGTTTCA
1 AGATTCACAAA-GTTCCA
* *
14354142 AGATTCGCAAAGGTTCTA
1 AGATTCACAAA-GTTCCA
14354160 AGATT-AGCAAAAGTTCCA
1 AGATTCA-C-AAAGTTCCA
** *
14354178 AGATTCGTAAAGGCTCCCA
1 AGATTCACAAA-G-TTCCA
* * *
14354197 AAATTCATAAAGATCCCA
1 AGATTCACAAAG-TTCCA
* * *
14354215 AGTTTTACAAAGATTTCA
1 AGATTCACAAAG-TTCCA
*
14354233 AGA-TCACAAAGGTTTTC-
1 AGATTCACAAA-G-TTCCA
14354250 AGA-TCACAAAGTT-CA
1 AGATTCACAAAGTTCCA
14354265 AGATTCACAAAAGTTCCA
1 AGATTCAC-AAAGTTCCA
* *
14354283 AAATTCACAAAGATTCGA
1 AGATTCACAAAG-TTCCA
14354301 AGATTCACAAA-TATCCCA
1 AGATTCACAAAGT-T-CCA
*
14354319 AGATTTGCAAAAAG-TCCA
1 AGA-TT-CACAAAGTTCCA
* * *
14354337 AGATTCATATAGATTCTA
1 AGATTCACAAAG-TTCCA
14354355 AGATTCACAAA
1 AGATTCACAAA
14354366 AATTACAAGA
Statistics
Matches: 176, Mismatches: 30, Indels: 36
0.73 0.12 0.15
Matches are distributed among these distances:
14 1 0.01
15 5 0.03
16 11 0.06
17 32 0.18
18 103 0.59
19 19 0.11
20 5 0.03
ACGTcount: A:0.42, C:0.19, G:0.14, T:0.26
Consensus pattern (17 bp):
AGATTCACAAAGTTCCA
Found at i:14354330 original size:54 final size:53
Alignment explanation
Indices: 14354263--14354382 Score: 141
Period size: 54 Copynumber: 2.2 Consensus size: 53
14354253 TCACAAAGTT
** * *
14354263 CAAGATTCACAAAAGTTCCAAAATTCACAAAGATTCGAAGATTCACAAATATCC
1 CAAGATTTGCAAAAG-TCCAAAATTCACAAAGATTCGAAGATTCACAAAAATCA
* * * * *
14354317 CAAGATTTGCAAAAAGTCCAAGATTCATATAGATTCTAAGATTCACAAAAATTA
1 CAAGATTTGC-AAAAGTCCAAAATTCACAAAGATTCGAAGATTCACAAAAATCA
14354371 CAAGATTTGCAA
1 CAAGATTTGCAA
14354383 TGACTTTAAG
Statistics
Matches: 56, Mismatches: 9, Indels: 3
0.82 0.13 0.04
Matches are distributed among these distances:
53 2 0.04
54 49 0.88
55 5 0.09
ACGTcount: A:0.46, C:0.18, G:0.11, T:0.25
Consensus pattern (53 bp):
CAAGATTTGCAAAAGTCCAAAATTCACAAAGATTCGAAGATTCACAAAAATCA
Found at i:14356999 original size:5 final size:5
Alignment explanation
Indices: 14356991--14357055 Score: 67
Period size: 5 Copynumber: 12.2 Consensus size: 5
14356981 CAAAACAAAT
* * *
14356991 TAAAA TAAAA TAAAG TAAAA TAAAA TTAAG TAAAA TAAAA TAAAA CTAAAAA
1 TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA TAAAA -T-AAAA
14357043 TTAAAA TTAAAA T
1 -TAAAA -TAAAA T
14357056 CGGTTAAGAC
Statistics
Matches: 51, Mismatches: 7, Indels: 4
0.82 0.11 0.06
Matches are distributed among these distances:
5 35 0.69
6 11 0.22
7 5 0.10
ACGTcount: A:0.71, C:0.02, G:0.03, T:0.25
Consensus pattern (5 bp):
TAAAA
Found at i:14357009 original size:15 final size:15
Alignment explanation
Indices: 14356991--14357034 Score: 79
Period size: 15 Copynumber: 2.9 Consensus size: 15
14356981 CAAAACAAAT
14356991 TAAAATAAAATAAAG
1 TAAAATAAAATAAAG
*
14357006 TAAAATAAAATTAAG
1 TAAAATAAAATAAAG
14357021 TAAAATAAAATAAA
1 TAAAATAAAATAAA
14357035 ACTAAAAATT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 27 1.00
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.23
Consensus pattern (15 bp):
TAAAATAAAATAAAG
Found at i:14357906 original size:160 final size:160
Alignment explanation
Indices: 14357634--14357993 Score: 427
Period size: 160 Copynumber: 2.2 Consensus size: 160
14357624 TATATATTGA
* * * * *
14357634 AGGACTTAGAGATTATGCTCGGAGGTCTTACAAATTTTAACTTTAAAATATATTCGACTTAAAAG
1 AGGACTTAGAGATTACGTTCGGAGGTCTTACAAATCTCAACTTTAAAATAGATTCGACTTAAAAG
* * * * *
14357699 AGTTATAAATCTTACCTAGAAGACTTGGAGATTATGCTCGAAGGTTTTATAAATATCGATAGATT
66 ACTTACAAATCTTACCTAGAAGACTTGGAGATTATACTCGAAGGTTTTACAAATATCAATAGATT
* *
14357764 TAACTCGA-AAGACTTATAAATCTTACCTGT
131 TAACT-GAGAAGACTTACAAATCTTACCTGG
* * * *
14357794 AGGACTTGGAGATTACATTCGGAGGTCTTACAAATCTCAACTTTAAAATAGATT-TAGTTCAAAA
1 AGGACTTAGAGATTACGTTCGGAGGTCTTACAAATCTCAACTTTAAAATAGATTCGACTT-AAAA
* * * * * *
14357858 GACTTACGAATCTTACTTGGAAGACTTGGAGATTATACTGGGAGGTTTTACAAATCTCAATAGAT
65 GACTTACAAATCTTACCTAGAAGACTTGGAGATTATACTCGAAGGTTTTACAAATATCAATAGAT
* * * *
14357923 TTAGCTTAGAAGACTTACGAATCTTACTTGG
130 TTAACTGAGAAGACTTACAAATCTTACCTGG
* * *
14357954 AAGACTTAGAGATTACGTTCAGAGGTCTTACATATCTCAA
1 AGGACTTAGAGATTACGTTCGGAGGTCTTACAAATCTCAA
14357994 TAGATTTAGC
Statistics
Matches: 167, Mismatches: 31, Indels: 4
0.83 0.15 0.02
Matches are distributed among these distances:
159 4 0.02
160 163 0.98
ACGTcount: A:0.35, C:0.14, G:0.18, T:0.33
Consensus pattern (160 bp):
AGGACTTAGAGATTACGTTCGGAGGTCTTACAAATCTCAACTTTAAAATAGATTCGACTTAAAAG
ACTTACAAATCTTACCTAGAAGACTTGGAGATTATACTCGAAGGTTTTACAAATATCAATAGATT
TAACTGAGAAGACTTACAAATCTTACCTGG
Found at i:14357936 original size:76 final size:76
Alignment explanation
Indices: 14357840--14358065 Score: 292
Period size: 76 Copynumber: 3.0 Consensus size: 76
14357830 TCAACTTTAA
* * *
14357840 AATAGATTTAG-TTCAAAAGACTTACGAATCTTACTTGGAAGACTTGGAGATTATACTGGGAGGT
1 AATAGATTTAGCTT-AGAAGACTTACGAATCTTACTTGGAAGACTTGGAGATTATGCTCGGAGGT
14357904 TTTACAAATCTC
65 TTTACAAATCTC
* * * * *
14357916 AATAGATTTAGCTTAGAAGACTTACGAATCTTACTTGGAAGACTTAGAGATTACGTTCAGAGGTC
1 AATAGATTTAGCTTAGAAGACTTACGAATCTTACTTGGAAGACTTGGAGATTATGCTCGGAGGTT
*
14357981 TTACATATCTC
66 TTACAAATCTC
** * * * * *
14357992 AATAGATTTAGCTCCGAAGATTTAAGAATCTTGCTTGGAAGACTTGGTGATTATGCTTGGAGGTT
1 AATAGATTTAGCTTAGAAGACTTACGAATCTTACTTGGAAGACTTGGAGATTATGCTCGGAGGTT
14358057 TTACAAATC
66 TTACAAATC
14358066 AAATTCTGAA
Statistics
Matches: 127, Mismatches: 22, Indels: 2
0.84 0.15 0.01
Matches are distributed among these distances:
76 125 0.98
77 2 0.02
ACGTcount: A:0.32, C:0.14, G:0.20, T:0.34
Consensus pattern (76 bp):
AATAGATTTAGCTTAGAAGACTTACGAATCTTACTTGGAAGACTTGGAGATTATGCTCGGAGGTT
TTACAAATCTC
Found at i:14358221 original size:23 final size:23
Alignment explanation
Indices: 14358190--14358248 Score: 73
Period size: 24 Copynumber: 2.5 Consensus size: 23
14358180 ATGATGTACT
* *
14358190 CAAAAGTTTTAAAAAGTATTACC
1 CAAAAGTTTTAAAAACTAATACC
* *
14358213 CAAAGGTTTTTCAAAACTAATACC
1 CAAAAG-TTTTAAAAACTAATACC
14358237 CAAAAGTTTTAA
1 CAAAAGTTTTAA
14358249 TAAATATACC
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
23 10 0.34
24 19 0.66
ACGTcount: A:0.46, C:0.15, G:0.08, T:0.31
Consensus pattern (23 bp):
CAAAAGTTTTAAAAACTAATACC
Found at i:14358404 original size:9 final size:9
Alignment explanation
Indices: 14358390--14358429 Score: 62
Period size: 9 Copynumber: 4.4 Consensus size: 9
14358380 TGATGTATTT
*
14358390 AATGCATGA
1 AATGCATGC
14358399 AATGCATGC
1 AATGCATGC
*
14358408 AATGAATGC
1 AATGCATGC
14358417 AATGCATGC
1 AATGCATGC
14358426 AATG
1 AATG
14358430 TATACCATAT
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
9 28 1.00
ACGTcount: A:0.40, C:0.15, G:0.23, T:0.23
Consensus pattern (9 bp):
AATGCATGC
Found at i:14359576 original size:16 final size:15
Alignment explanation
Indices: 14359555--14359584 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
14359545 TCTTTCCACC
14359555 TTTTTCTTTTCTTTGT
1 TTTTTCTTTT-TTTGT
14359571 TTTTTCTTTTTTTG
1 TTTTTCTTTTTTTG
14359585 CATGAGTTCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.00, C:0.10, G:0.07, T:0.83
Consensus pattern (15 bp):
TTTTTCTTTTTTTGT
Found at i:14362263 original size:6 final size:7
Alignment explanation
Indices: 14362242--14362266 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
14362232 AAGAATCTTT
14362242 AATTAAA
1 AATTAAA
14362249 AATTAAA
1 AATTAAA
14362256 AATTAAA
1 AATTAAA
14362263 AATT
1 AATT
14362267 GTTCTGACAA
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:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (7 bp):
AATTAAA
Found at i:14365086 original size:23 final size:22
Alignment explanation
Indices: 14365037--14365086 Score: 55
Period size: 23 Copynumber: 2.2 Consensus size: 22
14365027 GATTTGACCA
14365037 CAAAAATAAAATAAAATAAAAC
1 CAAAAATAAAATAAAATAAAAC
* * * *
14365059 TAAAAATTAAAATTAACTAAGAC
1 CAAAAA-TAAAATAAAATAAAAC
14365082 CAAAA
1 CAAAA
14365087 TCAAAACCTA
Statistics
Matches: 22, Mismatches: 5, Indels: 1
0.79 0.18 0.04
Matches are distributed among these distances:
22 5 0.23
23 17 0.77
ACGTcount: A:0.70, C:0.10, G:0.02, T:0.18
Consensus pattern (22 bp):
CAAAAATAAAATAAAATAAAAC
Found at i:14365351 original size:17 final size:17
Alignment explanation
Indices: 14365327--14365375 Score: 64
Period size: 17 Copynumber: 2.9 Consensus size: 17
14365317 TTCATATAGA
*
14365327 TTTAAGATTCGCAAAGG
1 TTTAAGATTTGCAAAGG
*
14365344 TTCT-AGATTTGTAAAGG
1 TT-TAAGATTTGCAAAGG
14365361 TTTAAGATTTGCAAA
1 TTTAAGATTTGCAAA
14365376 AATTTCAAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 4
0.79 0.09 0.12
Matches are distributed among these distances:
16 1 0.04
17 25 0.93
18 1 0.04
ACGTcount: A:0.35, C:0.08, G:0.20, T:0.37
Consensus pattern (17 bp):
TTTAAGATTTGCAAAGG
Found at i:14365413 original size:18 final size:18
Alignment explanation
Indices: 14365277--14365734 Score: 137
Period size: 18 Copynumber: 25.8 Consensus size: 18
14365267 TAAAGAATCC
*
14365277 AAGAGTCACAAAGATTTCT
1 AAGATTCACAAAGATTT-T
** *
14365296 -AGATTCTTAAAGATCTT
1 AAGATTCACAAAGATTTT
* * *
14365313 AAGGTTCATATAGA-TTT
1 AAGATTCACAAAGATTTT
* * *
14365330 AAGATTCGCAAAGGTTCT
1 AAGATTCACAAAGATTTT
*** *
14365348 -AGATTTGTAAAG-GTTT
1 AAGATTCACAAAGATTTT
** * *
14365364 AAGATTTGCAAAAATTTC
1 AAGATTCACAAAGATTTT
* *
14365382 AA-ATTTATAAAGATTTT
1 AAGATTCACAAAGATTTT
* *
14365399 AATATTCACAAAGATCTT
1 AAGATTCACAAAGATTTT
*
14365417 AAGATTTACAAAGATTTT
1 AAGATTCACAAAGATTTT
*** ***
14365435 AAGATTTGTAAAGATCCA
1 AAGATTCACAAAGATTTT
*
14365453 AAGATTCATAAAGA-TTT
1 AAGATTCACAAAGATTTT
* ** *** *
14365470 AATATTTGCTGTGGTTTT
1 AAGATTCACAAAGATTTT
* ** * **
14365488 GA-ATTTGCAAAGGTTCC
1 AAGATTCACAAAGATTTT
** ***
14365505 AAGATTTGCAAAGATCCC
1 AAGATTCACAAAGATTTT
14365523 AAGATTCACAAAGATTTT
1 AAGATTCACAAAGATTTT
** *
14365541 AAGACTT-GTAAAGATTCT
1 AAGA-TTCACAAAGATTTT
* * *
14365559 -AGATTTGA-AAAGGTTCT
1 AAGA-TTCACAAAGATTTT
* *
14365576 AAGATTCATAAATG-TTTC
1 AAGATTCACAAA-GATTTT
* * *
14365594 AATATTCACAAAGGTTCT
1 AAGATTCACAAAGATTTT
* ***
14365612 AAGATTCGCAAAGATCCC
1 AAGATTCACAAAGATTTT
* **
14365630 ATGATTCGTAAAGATTTT
1 AAGATTCACAAAGATTTT
*
14365648 AAAATTCACAAAGATTTT
1 AAGATTCACAAAGATTTT
* * *
14365666 AAGATTCATAAAAATCTT
1 AAGATTCACAAAGATTTT
** *
14365684 AAGATTCTTAAAGATTTC
1 AAGATTCACAAAGATTTT
*
14365702 AAGATTCACAAAGATTTC
1 AAGATTCACAAAGATTTT
14365720 AAGATTCACAAAGAT
1 AAGATTCACAAAGAT
14365735 CTCAAGATTT
Statistics
Matches: 325, Mismatches: 101, Indels: 27
0.72 0.22 0.06
Matches are distributed among these distances:
16 2 0.01
17 79 0.24
18 241 0.74
19 3 0.01
ACGTcount: A:0.40, C:0.12, G:0.14, T:0.34
Consensus pattern (18 bp):
AAGATTCACAAAGATTTT
Found at i:14365655 original size:54 final size:54
Alignment explanation
Indices: 14365495--14365743 Score: 191
Period size: 54 Copynumber: 4.6 Consensus size: 54
14365485 TTTGAATTTG
* * * * * * *
14365495 CAAAGGTTCCAAGATTTGCAAAGATCCCAAGATTCACAAAGATTTTAAGACTT-G
1 CAAAGATTCTAAGATTCGCAAAGATCCCAAGATTCATAAAGATTTCAA-AATTCA
* * * * * * *
14365549 TAAAGATTCT-AGATTTGAAAAGGTTCTAAGATTCATAAATG-TTTCAATATTCA
1 CAAAGATTCTAAGATTCGCAAAGATCCCAAGATTCATAAA-GATTTCAAAATTCA
* * * *
14365602 CAAAGGTTCTAAGATTCGCAAAGATCCCATGATTCGTAAAGATTTTAAAATTCA
1 CAAAGATTCTAAGATTCGCAAAGATCCCAAGATTCATAAAGATTTCAAAATTCA
* ** * ** * *
14365656 CAAAGATTTTAAGATTCATAAAAATCTTAAGATTCTTAAAGATTTCAAGATTCA
1 CAAAGATTCTAAGATTCGCAAAGATCCCAAGATTCATAAAGATTTCAAAATTCA
* *
14365710 CAAAGATT-TCAAGATTCACAAAGATCTCAAGATT
1 CAAAGATTCT-AAGATTCGCAAAGATCCCAAGATT
14365744 TGTAATACTT
Statistics
Matches: 153, Mismatches: 37, Indels: 10
0.76 0.19 0.05
Matches are distributed among these distances:
52 2 0.01
53 39 0.25
54 112 0.73
ACGTcount: A:0.41, C:0.14, G:0.13, T:0.31
Consensus pattern (54 bp):
CAAAGATTCTAAGATTCGCAAAGATCCCAAGATTCATAAAGATTTCAAAATTCA
Found at i:14365672 original size:36 final size:36
Alignment explanation
Indices: 14365513--14365743 Score: 155
Period size: 36 Copynumber: 6.4 Consensus size: 36
14365503 CCAAGATTTG
** * *
14365513 CAAAGATCCCAAGATTCACAAAGATTTTAAGACTT-G
1 CAAAGATTTCAAGATTCATAAAGATTTTAAGA-TTCA
* * * * *
14365549 TAAAGA-TTCTAGATTTGA-AAAGGTTCTAAGATTCA
1 CAAAGATTTCAAGA-TTCATAAAGATTTTAAGATTCA
* * * * * *
14365584 TAAATG-TTTCAATATTCACAAAGGTTCTAAGATTCG
1 CAAA-GATTTCAAGATTCATAAAGATTTTAAGATTCA
** * * *
14365620 CAAAGATCCCATGATTCGTAAAGATTTTAAAATTCA
1 CAAAGATTTCAAGATTCATAAAGATTTTAAGATTCA
* * * *
14365656 CAAAGATTTTAAGATTCATAAAAATCTTAAGATTCT
1 CAAAGATTTCAAGATTCATAAAGATTTTAAGATTCA
* * *
14365692 TAAAGATTTCAAGATTCACAAAGATTTCAAGATTCA
1 CAAAGATTTCAAGATTCATAAAGATTTTAAGATTCA
*
14365728 CAAAGATCTCAAGATT
1 CAAAGATTTCAAGATT
14365744 TGTAATACTT
Statistics
Matches: 148, Mismatches: 41, Indels: 12
0.74 0.20 0.06
Matches are distributed among these distances:
34 2 0.01
35 23 0.16
36 123 0.83
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.32
Consensus pattern (36 bp):
CAAAGATTTCAAGATTCATAAAGATTTTAAGATTCA
Found at i:14373482 original size:24 final size:24
Alignment explanation
Indices: 14373455--14373538 Score: 71
Period size: 24 Copynumber: 3.3 Consensus size: 24
14373445 GCAATCATAC
14373455 AATAATAAAAAATATCATGCAAAA
1 AATAATAAAAAATATCATGCAAAA
* ** *
14373479 AAT-ATAAAATCATGCCATGCAATA
1 AATAATAAAA-AATATCATGCAAAA
14373503 AATAATGCAATAAAATATCATGCAATAA
1 AATAAT--AA-AAAATATCATGCAA-AA
14373531 ATATAATA
1 A-ATAATA
14373539 TCATACCAAA
Statistics
Matches: 45, Mismatches: 8, Indels: 11
0.70 0.12 0.17
Matches are distributed among these distances:
23 6 0.13
24 16 0.36
25 2 0.04
27 12 0.27
28 4 0.09
29 5 0.11
ACGTcount: A:0.58, C:0.11, G:0.06, T:0.25
Consensus pattern (24 bp):
AATAATAAAAAATATCATGCAAAA
Found at i:14373512 original size:12 final size:13
Alignment explanation
Indices: 14373494--14373533 Score: 55
Period size: 12 Copynumber: 3.0 Consensus size: 13
14373484 AAAATCATGC
14373494 CATGCAATAAATA
1 CATGCAATAAATA
14373507 -ATGCAATAAAATA
1 CATGCAAT-AAATA
14373520 TCATGCAATAAATA
1 -CATGCAATAAATA
14373534 TAATATCATA
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
12 7 0.29
13 5 0.21
14 5 0.21
15 7 0.29
ACGTcount: A:0.55, C:0.12, G:0.07, T:0.25
Consensus pattern (13 bp):
CATGCAATAAATA
Found at i:14373527 original size:15 final size:14
Alignment explanation
Indices: 14373494--14373531 Score: 53
Period size: 15 Copynumber: 2.8 Consensus size: 14
14373484 AAAATCATGC
14373494 CATGCAAT-AAATA
1 CATGCAATAAAATA
14373507 -ATGCAATAAAATA
1 CATGCAATAAAATA
14373520 TCATGCAATAAA
1 -CATGCAATAAA
14373532 TATAATATCA
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
12 7 0.32
13 5 0.23
15 10 0.45
ACGTcount: A:0.55, C:0.13, G:0.08, T:0.24
Consensus pattern (14 bp):
CATGCAATAAAATA
Found at i:14373551 original size:19 final size:19
Alignment explanation
Indices: 14373511--14373553 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
14373501 TAAATAATGC
*
14373511 AATAAAATATCATGCAATA
1 AATAAAATATCATCCAATA
*
14373530 AATATAATATCATACCAA-A
1 AATAAAATATCAT-CCAATA
14373549 AATAA
1 AATAA
14373554 GCCAAGATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 2
0.80 0.12 0.08
Matches are distributed among these distances:
19 17 0.85
20 3 0.15
ACGTcount: A:0.60, C:0.12, G:0.02, T:0.26
Consensus pattern (19 bp):
AATAAAATATCATCCAATA
Found at i:14373640 original size:20 final size:19
Alignment explanation
Indices: 14373615--14373673 Score: 73
Period size: 20 Copynumber: 3.0 Consensus size: 19
14373605 TATCTATTAA
*
14373615 AAAATATCTTGCAATAATAT
1 AAAATATCATGCAA-AATAT
*
14373635 AAAATATCATGTAAAAATAT
1 AAAATATCATG-CAAAATAT
*
14373655 AAAATTTCATGCAAAATAT
1 AAAATATCATGCAAAATAT
14373674 TAATTACTAT
Statistics
Matches: 34, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
19 7 0.21
20 25 0.74
21 2 0.06
ACGTcount: A:0.54, C:0.08, G:0.05, T:0.32
Consensus pattern (19 bp):
AAAATATCATGCAAAATAT
Found at i:14373698 original size:19 final size:19
Alignment explanation
Indices: 14373663--14373750 Score: 76
Period size: 19 Copynumber: 4.6 Consensus size: 19
14373653 ATAAAATTTC
* *
14373663 ATGCAAA-ATATTAATTACT
1 ATGCAAATATAAT-ATTAAT
14373682 ATGCAAATATAATATTAAT
1 ATGCAAATATAATATTAAT
14373701 AATGC-AATATAATA-TAAT
1 -ATGCAAATATAATATTAAT
* *
14373719 CATGTAGATATAATA-TAATT
1 -ATGCAAATATAATATTAA-T
14373739 ATGCAAATATAA
1 ATGCAAATATAA
14373751 CATAAATTAT
Statistics
Matches: 58, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
18 7 0.12
19 42 0.72
20 9 0.16
ACGTcount: A:0.51, C:0.07, G:0.07, T:0.35
Consensus pattern (19 bp):
ATGCAAATATAATATTAAT
Found at i:14373755 original size:19 final size:19
Alignment explanation
Indices: 14373681--14373760 Score: 90
Period size: 19 Copynumber: 4.2 Consensus size: 19
14373671 TATTAATTAC
14373681 TATGCAAATATAATATTAAT
1 TATGCAAATATAATA-TAAT
*
14373701 AATGC-AATATAATATAAT
1 TATGCAAATATAATATAAT
* * *
14373719 CATGTAGATATAATATAAT
1 TATGCAAATATAATATAAT
*
14373738 TATGCAAATATAACATAAAT
1 TATGCAAATATAATAT-AAT
14373758 TAT
1 TAT
14373761 CATGCAATAA
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
18 7 0.14
19 33 0.66
20 10 0.20
ACGTcount: A:0.51, C:0.06, G:0.06, T:0.36
Consensus pattern (19 bp):
TATGCAAATATAATATAAT
Found at i:14373779 original size:23 final size:23
Alignment explanation
Indices: 14373753--14373841 Score: 88
Period size: 23 Copynumber: 3.7 Consensus size: 23
14373743 AAATATAACA
*
14373753 TAAATTATCATGCAATAATATTT
1 TAAAATATCATGCAATAATATTT
* **
14373776 TAAAATATCATGCAATTATCATGC
1 TAAAATATCATGCAATAAT-ATTT
* *
14373800 AAAAATAACGTCATGTAATAATATTT
1 TAAAAT-A--TCATGCAATAATATTT
14373826 TAAAATATCATGCAAT
1 TAAAATATCATGCAAT
14373842 TATCATGCAA
Statistics
Matches: 51, Mismatches: 11, Indels: 8
0.73 0.16 0.11
Matches are distributed among these distances:
23 25 0.49
24 7 0.14
25 2 0.04
26 7 0.14
27 10 0.20
ACGTcount: A:0.46, C:0.11, G:0.07, T:0.36
Consensus pattern (23 bp):
TAAAATATCATGCAATAATATTT
Found at i:14373820 original size:50 final size:50
Alignment explanation
Indices: 14373759--14373873 Score: 203
Period size: 50 Copynumber: 2.3 Consensus size: 50
14373749 AACATAAATT
14373759 ATCATGCAATAATATTTTAAAATATCATGCAATTATCATGCAAAAATAAC
1 ATCATGCAATAATATTTTAAAATATCATGCAATTATCATGCAAAAATAAC
* * *
14373809 GTCATGTAATAATATTTTAAAATATCATGCAATTATCATGCAAAAGTAAC
1 ATCATGCAATAATATTTTAAAATATCATGCAATTATCATGCAAAAATAAC
14373859 ATCATGCAATAATAT
1 ATCATGCAATAATAT
14373874 AAAGTATTAA
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
50 60 1.00
ACGTcount: A:0.46, C:0.13, G:0.08, T:0.33
Consensus pattern (50 bp):
ATCATGCAATAATATTTTAAAATATCATGCAATTATCATGCAAAAATAAC
Found at i:14373853 original size:23 final size:23
Alignment explanation
Indices: 14373777--14373853 Score: 66
Period size: 23 Copynumber: 3.2 Consensus size: 23
14373767 ATAATATTTT
14373777 AAAATATCATGCAATTATCATGC
1 AAAATATCATGCAATTATCATGC
* * **
14373800 AAAAATAACGTCATGTAATAAT-ATTTT
1 -AAAAT-A--TCATGCAATTATCA-TGC
14373827 AAAATATCATGCAATTATCATGC
1 AAAATATCATGCAATTATCATGC
14373850 AAAA
1 AAAA
14373854 GTAACATCAT
Statistics
Matches: 40, Mismatches: 8, Indels: 11
0.68 0.14 0.19
Matches are distributed among these distances:
23 15 0.38
24 6 0.15
25 2 0.05
26 6 0.15
27 11 0.28
ACGTcount: A:0.48, C:0.13, G:0.08, T:0.31
Consensus pattern (23 bp):
AAAATATCATGCAATTATCATGC
Found at i:14374110 original size:7 final size:7
Alignment explanation
Indices: 14374088--14374162 Score: 71
Period size: 7 Copynumber: 10.1 Consensus size: 7
14374078 CATCATAATT
*
14374088 AAATAAC
1 AAATAAA
*
14374095 AATTAAA
1 AAATAAA
*
14374102 TAATAAA
1 AAATAAA
14374109 TAACATAAA
1 -AA-ATAAA
14374118 AAATAGAA
1 AAATA-AA
14374126 AAATAAA
1 AAATAAA
14374133 AAA-AAA
1 AAATAAA
14374139 TAAAGTAAA
1 -AAA-TAAA
14374148 AAATAAA
1 AAATAAA
14374155 AAATAAA
1 AAATAAA
14374162 A
1 A
14374163 TAAAAATCAG
Statistics
Matches: 57, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
6 3 0.05
7 33 0.58
8 13 0.23
9 8 0.14
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.17
Consensus pattern (7 bp):
AAATAAA
Found at i:14374121 original size:12 final size:11
Alignment explanation
Indices: 14374098--14374166 Score: 61
Period size: 12 Copynumber: 6.0 Consensus size: 11
14374088 AAATAACAAT
*
14374098 TAAATAATAAA
1 TAAAAAATAAA
14374109 TAACATAAA-AAA
1 TAA-A-AAATAAA
14374121 TAGAAAAATAAA
1 TA-AAAAATAAA
14374133 -AAAAAATAAA
1 TAAAAAATAAA
14374143 GTAAAAAATAAA
1 -TAAAAAATAAA
*
14374155 AAATAAAATAAA
1 TAA-AAAATAAA
14374167 AATCAGAAAT
Statistics
Matches: 49, Mismatches: 2, Indels: 13
0.77 0.03 0.20
Matches are distributed among these distances:
10 9 0.18
11 9 0.18
12 28 0.57
13 3 0.06
ACGTcount: A:0.78, C:0.01, G:0.03, T:0.17
Consensus pattern (11 bp):
TAAAAAATAAA
Found at i:14374133 original size:15 final size:14
Alignment explanation
Indices: 14374088--14374162 Score: 71
Period size: 15 Copynumber: 5.1 Consensus size: 14
14374078 CATCATAATT
* *
14374088 AAATAACAATTAAA
1 AAATAAAAAATAAA
*
14374102 TAATAAATAACATAAA
1 AAATAAA-AA-ATAAA
14374118 AAATAGAAAAATAAA
1 AAATA-AAAAATAAA
14374133 AAA-AAATAAAGTAAA
1 AAATAAA-AAA-TAAA
14374148 AAATAAAAAATAAA
1 AAATAAAAAATAAA
14374162 A
1 A
14374163 TAAAAATCAG
Statistics
Matches: 51, Mismatches: 4, Indels: 12
0.76 0.06 0.18
Matches are distributed among these distances:
13 2 0.04
14 14 0.27
15 20 0.39
16 13 0.25
17 2 0.04
ACGTcount: A:0.77, C:0.03, G:0.03, T:0.17
Consensus pattern (14 bp):
AAATAAAAAATAAA
Found at i:14374140 original size:30 final size:30
Alignment explanation
Indices: 14374099--14374169 Score: 101
Period size: 30 Copynumber: 2.3 Consensus size: 30
14374089 AATAACAATT
14374099 AAATAATAAATAACA-TAAAAAATAGAAAAATA
1 AAATAA-AAATAA-AGTAAAAAATA-AAAAATA
14374131 AAA-AAAAATAAAGTAAAAAATAAAAAATA
1 AAATAAAAATAAAGTAAAAAATAAAAAATA
14374160 AAATAAAAAT
1 AAATAAAAAT
14374170 CAGAAATGAA
Statistics
Matches: 37, Mismatches: 0, Indels: 6
0.86 0.00 0.14
Matches are distributed among these distances:
29 11 0.30
30 21 0.57
31 2 0.05
32 3 0.08
ACGTcount: A:0.79, C:0.01, G:0.03, T:0.17
Consensus pattern (30 bp):
AAATAAAAATAAAGTAAAAAATAAAAAATA
Found at i:14374161 original size:19 final size:18
Alignment explanation
Indices: 14374099--14374162 Score: 69
Period size: 19 Copynumber: 3.4 Consensus size: 18
14374089 AATAACAATT
*
14374099 AAATAATAAATAACATAAA
1 AAATAAAAAATAA-ATAAA
14374118 AAATAGAAAAATAAA-AAA
1 AAATA-AAAAATAAATAAA
14374136 AAATAAAGTAAA-AAATAAA
1 AAATAAA--AAATAAATAAA
14374155 AAATAAAA
1 AAATAAAA
14374163 TAAAAATCAG
Statistics
Matches: 40, Mismatches: 1, Indels: 10
0.78 0.02 0.20
Matches are distributed among these distances:
17 3 0.08
18 11 0.28
19 19 0.47
20 7 0.17
ACGTcount: A:0.80, C:0.02, G:0.03, T:0.16
Consensus pattern (18 bp):
AAATAAAAAATAAATAAA
Found at i:14374880 original size:15 final size:15
Alignment explanation
Indices: 14374860--14374893 Score: 59
Period size: 15 Copynumber: 2.3 Consensus size: 15
14374850 TTAGAGTAGA
*
14374860 TTTTAGGATTTACAT
1 TTTTAGCATTTACAT
14374875 TTTTAGCATTTACAT
1 TTTTAGCATTTACAT
14374890 TTTT
1 TTTT
14374894 TATTCATTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 18 1.00
ACGTcount: A:0.24, C:0.09, G:0.09, T:0.59
Consensus pattern (15 bp):
TTTTAGCATTTACAT
Found at i:14379005 original size:25 final size:24
Alignment explanation
Indices: 14378963--14379010 Score: 60
Period size: 25 Copynumber: 2.0 Consensus size: 24
14378953 TGAAATATTA
* *
14378963 TTTTAAATTTATTTATTTATTTAT
1 TTTTAAATTAATTAATTTATTTAT
*
14378987 TTTTGAAATTAATTAATTTTTTTA
1 TTTT-AAATTAATTAATTTATTTA
14379011 AAAAATTAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 4 0.20
25 16 0.80
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (24 bp):
TTTTAAATTAATTAATTTATTTAT
Found at i:14379501 original size:20 final size:20
Alignment explanation
Indices: 14379476--14379515 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
14379466 GTTTTATTTA
14379476 GGGTTTAACATTAGGGTTTT
1 GGGTTTAACATTAGGGTTTT
* *
14379496 GGGTTTCATATTAGGGTTTT
1 GGGTTTAACATTAGGGTTTT
14379516 TGTTTCATTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.17, C:0.05, G:0.30, T:0.47
Consensus pattern (20 bp):
GGGTTTAACATTAGGGTTTT
Found at i:14379522 original size:19 final size:20
Alignment explanation
Indices: 14379485--14379532 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
14379475 AGGGTTTAAC
14379485 ATTAGGGTTTTGGGTTTCAT
1 ATTAGGGTTTTGGGTTTCAT
*
14379505 ATTAGGGTTTT-TGTTTCAT
1 ATTAGGGTTTTGGGTTTCAT
14379524 -TTAGGGTTT
1 ATTAGGGTTT
14379533 CAAGTTAAGG
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
18 9 0.33
19 7 0.26
20 11 0.41
ACGTcount: A:0.15, C:0.04, G:0.27, T:0.54
Consensus pattern (20 bp):
ATTAGGGTTTTGGGTTTCAT
Found at i:14379597 original size:13 final size:13
Alignment explanation
Indices: 14379567--14379605 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
14379557 TAAGGTTTTG
*
14379567 TTTTAGGGTTTTA
1 TTTTAGGGTTTCA
*
14379580 CTTTAGGGTTTCA
1 TTTTAGGGTTTCA
*
14379593 TTTTAAGGTTTCA
1 TTTTAGGGTTTCA
14379606 CAAATTTATG
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 22 1.00
ACGTcount: A:0.18, C:0.08, G:0.21, T:0.54
Consensus pattern (13 bp):
TTTTAGGGTTTCA
Found at i:14381322 original size:15 final size:16
Alignment explanation
Indices: 14381294--14381326 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
14381284 TTTTTTTCTT
14381294 TCTTCTCTCCCTTCTGC
1 TCTTCTCT-CCTTCTGC
14381311 TCTTCTCT-CTTCTGC
1 TCTTCTCTCCTTCTGC
14381326 T
1 T
14381327 TTTATCCCCG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 8 0.50
17 8 0.50
ACGTcount: A:0.00, C:0.42, G:0.06, T:0.52
Consensus pattern (16 bp):
TCTTCTCTCCTTCTGC
Found at i:14381830 original size:15 final size:17
Alignment explanation
Indices: 14381810--14381844 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
14381800 AGTACTAGTA
14381810 TATTTTT-T-TATTTTT
1 TATTTTTGTATATTTTT
14381825 TATTTTTGTATATTTTT
1 TATTTTTGTATATTTTT
14381842 TAT
1 TAT
14381845 ATGATTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 7 0.39
16 1 0.06
17 10 0.56
ACGTcount: A:0.17, C:0.00, G:0.03, T:0.80
Consensus pattern (17 bp):
TATTTTTGTATATTTTT
Found at i:14381855 original size:25 final size:25
Alignment explanation
Indices: 14381807--14381856 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
14381797 ACTAGTACTA
**
14381807 GTATATTTTTTTATTTTTTATTTTT
1 GTATATTTTTTTATGATTTATTTTT
14381832 GTATATTTTTTATATGATTT-TTTTT
1 GTATATTTTTT-TATGATTTATTTTT
14381857 AGTTTTGTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 16 0.73
26 6 0.27
ACGTcount: A:0.18, C:0.00, G:0.06, T:0.76
Consensus pattern (25 bp):
GTATATTTTTTTATGATTTATTTTT
Found at i:14382289 original size:19 final size:19
Alignment explanation
Indices: 14382267--14382305 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
14382257 ATTTTTAATG
*
14382267 TTATATGTTTTTTTTGTTT
1 TTATATGTTTGTTTTGTTT
*
14382286 TTATTTGTTTGTTTTGTTT
1 TTATATGTTTGTTTTGTTT
14382305 T
1 T
14382306 ATTTTTGCTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.08, C:0.00, G:0.13, T:0.79
Consensus pattern (19 bp):
TTATATGTTTGTTTTGTTT
Found at i:14382319 original size:23 final size:23
Alignment explanation
Indices: 14382297--14382346 Score: 73
Period size: 23 Copynumber: 2.1 Consensus size: 23
14382287 TATTTGTTTG
14382297 TTTTGTTTTATTTTTGCTTTTTGCT
1 TTTTG-TTT-TTTTTGCTTTTTGCT
*
14382322 TTTTGTTTTTTTTGCTTTTTCCT
1 TTTTGTTTTTTTTGCTTTTTGCT
14382345 TT
1 TT
14382347 AAGATGATTA
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
23 16 0.67
24 3 0.12
25 5 0.21
ACGTcount: A:0.02, C:0.10, G:0.10, T:0.78
Consensus pattern (23 bp):
TTTTGTTTTTTTTGCTTTTTGCT
Found at i:14382666 original size:35 final size:34
Alignment explanation
Indices: 14382552--14383345 Score: 237
Period size: 35 Copynumber: 23.6 Consensus size: 34
14382542 TTTGTACTAA
* * ** *
14382552 CTAAACTGAACTTAAA-ATTTCATTGA-CACCAA
1 CTAAACTGAGCTTAAATTTTTCATTGAGTGCCAG
** * * * *
14382584 CTAAACTGAATTTAAA-ATTTCATTAATTGCTAG
1 CTAAACTGAGCTTAAATTTTTCATTGAGTGCCAG
* *
14382617 ATAAACTGATCTTAAAGTTTTTCATTGAGTGCCAG
1 CTAAACTGAGCTTAAA-TTTTTCATTGAGTGCCAG
** *
14382652 CTAATTTGAGCTTAAA-TTTT-ATT-AGTGCCAA
1 CTAAACTGAGCTTAAATTTTTCATTGAGTGCCAG
* * *
14382683 CTAAATTG-GACTTAAATATTTTCATTAAGTGCTAG
1 CTAAACTGAG-CTTAAAT-TTTTCATTGAGTGCCAG
* * * * * * *
14382718 CT-AATTTAGGCATAAA-TTTCCATTGGGTGCTAT
1 CTAAACTGA-GCTTAAATTTTTCATTGAGTGCCAG
* *
14382751 ATAAACT-AGGCTTAAATTTGTTCATTGAGTGCTAG
1 CTAAACTGA-GCTTAAATTT-TTCATTGAGTGCCAG
* *
14382786 CTAAACT-A-CTTTAAAATTTGTTCATTAAGTGCTAG
1 CTAAACTGAGC-TT-AAATTT-TTCATTGAGTGCCAG
* ** *
14382821 ATAAACT-AGGCTTAAAACTTT-ATTG-GTGCCAA
1 CTAAACTGA-GCTTAAATTTTTCATTGAGTGCCAG
*
14382853 CTAAACTGGGCTTAAAGTTTTTCATTGAGTGCCAG
1 CTAAACTGAGCTTAAA-TTTTTCATTGAGTGCCAG
* * * *
14382888 CTAAACTGGGCTTAAA----AC-TTGGGTGTCAG
1 CTAAACTGAGCTTAAATTTTTCATTGAGTGCCAG
* *
14382917 CT-AATTGAGCTTAAA-TTTTCATTGGGTGCCAG
1 CTAAACTGAGCTTAAATTTTTCATTGAGTGCCAG
* * * * * *
14382949 ATAATCTGAGTTTAAAATTTTTCATTAAGAGCTAG
1 CTAAACTGAGCTT-AAATTTTTCATTGAGTGCCAG
* *
14382984 CTAAACT-AGGCTTAAATTTTTTTCATCGAGTGCTAG
1 CTAAACTGA-GCTTAAA--TTTTTCATTGAGTGCCAG
** * * * * *
14383020 CTAATTTGGGTTTAAA-TTTACATTGGGTGCTAG
1 CTAAACTGAGCTTAAATTTTTCATTGAGTGCCAG
* * * **
14383053 ATAAACT-AGGTTTAAATTTTTTTTTTTCATTAAGTGTTAG
1 CTAAACTGA-GCTTAAA------TTTTTCATTGAGTGCCAG
* *
14383093 CTAAACT-AGATTACATTTTTTTCATTGAGT-CCTAG
1 CTAAACTGAGCTTA-A-ATTTTTCATTGAGTGCC-AG
* * ** *
14383128 ATAAACTAAGCTTAAA-ACTTCATTG-GTGCCAA
1 CTAAACTGAGCTTAAATTTTTCATTGAGTGCCAG
*
14383160 CTAAATTTG-GCTTAAAGTTTTTCATTGAGTGCCAG
1 CTAAA-CTGAGCTTAAA-TTTTTCATTGAGTGCCAG
* * * **
14383195 CTAAACTG-GACTTAAA----ACCTAG-GTGTTAG
1 CTAAACTGAG-CTTAAATTTTTCATTGAGTGCCAG
* *
14383224 CT-AACT-AGGCTTAAA-TTTTCATTGGGTGTCAG
1 CTAAACTGA-GCTTAAATTTTTCATTGAGTGCCAG
* * * ****
14383256 ATAATCTGGGCTTAAAATTTTTCATTGAGAATTAG
1 CTAAACTGAGCTT-AAATTTTTCATTGAGTGCCAG
*
14383291 CTAAACT-AGGCTTAAATTTTTTCCATTGAGTGCCAA
1 CTAAACTGA-GCTTAAA-TTTTT-CATTGAGTGCCAG
**
14383327 CTAATTTGAGCTTAAATTT
1 CTAAACTGAGCTTAAATTT
14383346 CTATTAGATG
Statistics
Matches: 571, Mismatches: 127, Indels: 125
0.69 0.15 0.15
Matches are distributed among these distances:
28 21 0.04
29 19 0.03
30 5 0.01
31 24 0.04
32 77 0.13
33 101 0.18
34 43 0.08
35 200 0.35
36 54 0.09
37 2 0.00
39 4 0.01
40 21 0.04
ACGTcount: A:0.32, C:0.14, G:0.16, T:0.38
Consensus pattern (34 bp):
CTAAACTGAGCTTAAATTTTTCATTGAGTGCCAG
Found at i:14382680 original size:31 final size:35
Alignment explanation
Indices: 14382627--14382724 Score: 100
Period size: 31 Copynumber: 2.9 Consensus size: 35
14382617 ATAAACTGAT
*
14382627 CTTAAAGT-TTTTCATTGAGTGCCAGCTAATTT-GA
1 CTTAAA-TATTTTCATTAAGTGCCAGCTAATTTGGA
* *
14382661 GCTT-AA-ATTTT-ATT-AGTGCCAACTAAATTGGA
1 -CTTAAATATTTTCATTAAGTGCCAGCTAATTTGGA
*
14382693 CTTAAATATTTTCATTAAGTGCTAGCTAATTT
1 CTTAAATATTTTCATTAAGTGCCAGCTAATTT
14382725 AGGCATAAAT
Statistics
Matches: 52, Mismatches: 5, Indels: 12
0.75 0.07 0.17
Matches are distributed among these distances:
31 16 0.31
32 7 0.13
33 9 0.17
34 5 0.10
35 15 0.29
ACGTcount: A:0.31, C:0.13, G:0.14, T:0.42
Consensus pattern (35 bp):
CTTAAATATTTTCATTAAGTGCCAGCTAATTTGGA
Found at i:14382782 original size:68 final size:65
Alignment explanation
Indices: 14382627--14382789 Score: 170
Period size: 66 Copynumber: 2.4 Consensus size: 65
14382617 ATAAACTGAT
* * * *
14382627 CTTAAAGTTTTTCATTGAGTGCCAGCTAATTTGAGCTTAAATTTTATTAGTGCCAACTAAATTGG
1 CTTAAA-TTTTTCATTGAGTGCTAGCTAATTTGAGCATAAATTTCATTAGTGCCAACTAAATAGG
14382692 A
65 A
* * *
14382693 CTTAAATATTTTCATTAAGTGCTAGCTAATTT-AGGCATAAATTTCCATTGGGTGCTATA-TAAA
1 CTTAAAT-TTTTCATTGAGTGCTAGCTAATTTGA-GCATAAATTT-CATT-AGTGCCA-ACTAAA
14382756 CTAGG-
61 -TAGGA
14382761 CTTAAATTTGTTCATTGAGTGCTAGCTAA
1 CTTAAATTT-TTCATTGAGTGCTAGCTAA
14382790 ACTACTTTAA
Statistics
Matches: 82, Mismatches: 8, Indels: 12
0.80 0.08 0.12
Matches are distributed among these distances:
65 2 0.02
66 37 0.45
67 5 0.06
68 34 0.41
69 4 0.05
ACGTcount: A:0.31, C:0.13, G:0.17, T:0.39
Consensus pattern (65 bp):
CTTAAATTTTTCATTGAGTGCTAGCTAATTTGAGCATAAATTTCATTAGTGCCAACTAAATAGGA
Found at i:14382944 original size:32 final size:35
Alignment explanation
Indices: 14382906--14382974 Score: 90
Period size: 32 Copynumber: 2.1 Consensus size: 35
14382896 GGCTTAAAAC
* *
14382906 TTGGGTGTCAGCTAAT-TGAGCTT-AAA-TTTTCA
1 TTGGGTGCCAGATAATCTGAGCTTAAAATTTTTCA
*
14382938 TTGGGTGCCAGATAATCTGAGTTTAAAATTTTTCA
1 TTGGGTGCCAGATAATCTGAGCTTAAAATTTTTCA
14382973 TT
1 TT
14382975 AAGAGCTAGC
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
32 14 0.45
33 6 0.19
34 3 0.10
35 8 0.26
ACGTcount: A:0.26, C:0.12, G:0.20, T:0.42
Consensus pattern (35 bp):
TTGGGTGCCAGATAATCTGAGCTTAAAATTTTTCA
Found at i:14383250 original size:307 final size:301
Alignment explanation
Indices: 14382635--14383345 Score: 903
Period size: 307 Copynumber: 2.4 Consensus size: 301
14382625 ATCTTAAAGT
* * * * * * *
14382635 TTTTCATTGAGTGCCAGCTAATTTGAGCTT-AAA-TTTT-ATTAGTGCCAACTAAA-TTGGACTT
1 TTTTCATTGGGTGCCAGATAATCTGAGCTTAAAATTTTTCATTAGAGCTAGCTAAACTAGG-CTT
* * * * * *
14382696 AAA-TATTTTCATTAAGTGCTAGCTAATTTAGGCATAAATTTCCATTGGGTGCTATATAAACTAG
65 AAATTTTTTTCATTGAGTGCTAGCTAATTTGGGCTTAAATTTACATTGGGTGCTAGATAAACTAG
* * *
14382760 GCTTAAATTTGTTCATTGAGTGCTAGCTAAACTACTTTAAAATTTGTTCATTAAGTGCTAGATAA
130 GCTTAAATTTGTTCATTAAGTGCTAGCTAAACTACATTAAAATTTGTTCATTAAGTCCTAGATAA
* *
14382825 ACTAGGCTTAAAACTTTATTGGTGCCAACTAAACTGGGCTTAAAGTTTTTCATTGAGTGCCAGCT
195 ACTAAGCTTAAAACTTCATTGGTGCCAACTAAACTGGGCTTAAAGTTTTTCATTGAGTGCCAGCT
* * * *
14382890 AAACTGGGCTTAAAACTTGGGTGTCAGCTAATTGAGCTTAAA
260 AAACTGGACTTAAAACCTAGGTGTCAGCTAATAGAGCTTAAA
*
14382932 TTTTCATTGGGTGCCAGATAATCTGAGTTTAAAATTTTTCATTAAGAGCTAGCTAAACTAGGCTT
1 TTTTCATTGGGTGCCAGATAATCTGAGCTTAAAATTTTTCATT-AGAGCTAGCTAAACTAGGCTT
* *
14382997 AAATTTTTTTCATCGAGTGCTAGCTAATTTGGGTTTAAATTTACATTGGGTGCTAGATAAACTAG
65 AAATTTTTTTCATTGAGTGCTAGCTAATTTGGGCTTAAATTTACATTGGGTGCTAGATAAACTAG
* * * * * * * *
14383062 GTTTAAATTTTTTTTTTTCATTAAGTGTTAGCTAAACTAGATTACATTTTTTTCATTGAGTCCTA
130 GCTTAAA-----TTTGTTCATTAAGTGCTAGCTAAACTACATTAAAATTTGTTCATTAAGTCCTA
* *
14383127 GATAAACTAAGCTTAAAACTTCATTGGTGCCAACTAAATTTGGCTTAAAGTTTTTCATTGAGTGC
190 GATAAACTAAGCTTAAAACTTCATTGGTGCCAACTAAACTGGGCTTAAAGTTTTTCATTGAGTGC
*
14383192 CAGCTAAACTGGACTTAAAACCTAGGTGTTAGCTAACTAG-GCTTAAA
255 CAGCTAAACTGGACTTAAAACCTAGGTGTCAGCTAA-TAGAGCTTAAA
* * **
14383239 TTTTCATTGGGTGTCAGATAATCTGGGCTTAAAATTTTTCATTGAGAATTAGCTAAACTAGGCTT
1 TTTTCATTGGGTGCCAGATAATCTGAGCTTAAAATTTTTCATT-AGAGCTAGCTAAACTAGGCTT
* * * *
14383304 AAATTTTTTCCATTGAGTGCCAACTAATTTGAGCTTAAATTT
65 AAATTTTTTTCATTGAGTGCTAGCTAATTTGGGCTTAAATTT
14383346 CTATTAGATG
Statistics
Matches: 354, Mismatches: 48, Indels: 14
0.85 0.12 0.03
Matches are distributed among these distances:
297 26 0.07
298 3 0.01
299 4 0.01
300 3 0.01
301 16 0.05
302 62 0.18
307 238 0.67
308 2 0.01
ACGTcount: A:0.30, C:0.14, G:0.17, T:0.38
Consensus pattern (301 bp):
TTTTCATTGGGTGCCAGATAATCTGAGCTTAAAATTTTTCATTAGAGCTAGCTAAACTAGGCTTA
AATTTTTTTCATTGAGTGCTAGCTAATTTGGGCTTAAATTTACATTGGGTGCTAGATAAACTAGG
CTTAAATTTGTTCATTAAGTGCTAGCTAAACTACATTAAAATTTGTTCATTAAGTCCTAGATAAA
CTAAGCTTAAAACTTCATTGGTGCCAACTAAACTGGGCTTAAAGTTTTTCATTGAGTGCCAGCTA
AACTGGACTTAAAACCTAGGTGTCAGCTAATAGAGCTTAAA
Found at i:14383582 original size:34 final size:33
Alignment explanation
Indices: 14383490--14383587 Score: 88
Period size: 36 Copynumber: 2.8 Consensus size: 33
14383480 TTTGGCTTTA
* * *
14383490 AAATTTTTTATCAAGTGCCAGCGAAACTGGACTT
1 AAATTTTTTATGAA-TGCCAACTAAACTGGACTT
* ** *
14383524 AAATTTTTTTTATTGAGTATCAACTAAACTGGGCTT
1 AAA--TTTTTTA-TGAATGCCAACTAAACTGGACTT
14383560 AAATTTTTTCATGAATGCCAACTAAACT
1 AAATTTTTT-ATGAATGCCAACTAAACT
14383588 AGGCATACAA
Statistics
Matches: 50, Mismatches: 10, Indels: 8
0.74 0.15 0.12
Matches are distributed among these distances:
34 23 0.46
35 1 0.02
36 24 0.48
37 2 0.04
ACGTcount: A:0.34, C:0.15, G:0.13, T:0.38
Consensus pattern (33 bp):
AAATTTTTTATGAATGCCAACTAAACTGGACTT
Found at i:14384578 original size:17 final size:17
Alignment explanation
Indices: 14384556--14384609 Score: 51
Period size: 18 Copynumber: 3.2 Consensus size: 17
14384546 ATCTTTCTTC
**
14384556 CTTTTTCTTTTTTTTTT
1 CTTTTTCTTTTTTCATT
14384573 CTTTTTTCTTTCTTTCATT
1 C-TTTTTCTTT-TTTCATT
14384592 -TTTTTC--TTTTCATT
1 CTTTTTCTTTTTTCATT
14384606 CTTT
1 CTTT
14384610 CACTTCTTCT
Statistics
Matches: 32, Mismatches: 2, Indels: 8
0.76 0.05 0.19
Matches are distributed among these distances:
14 7 0.22
15 4 0.12
17 7 0.22
18 9 0.28
19 5 0.16
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.80
Consensus pattern (17 bp):
CTTTTTCTTTTTTCATT
Found at i:14384586 original size:22 final size:24
Alignment explanation
Indices: 14384559--14384610 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 24
14384549 TTTCTTCCTT
14384559 TTTCTTT-TTTTTTTCTTTT-TTC
1 TTTCTTTATTTTTTTCTTTTATTC
14384581 TTTCTTTCATTTTTTTCTTTTCATTC
1 TTTCTTT-ATTTTTTTCTTTT-ATTC
14384607 TTTC
1 TTTC
14384611 ACTTCTTCTT
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
22 7 0.27
24 12 0.46
26 7 0.27
ACGTcount: A:0.04, C:0.17, G:0.00, T:0.79
Consensus pattern (24 bp):
TTTCTTTATTTTTTTCTTTTATTC
Found at i:14384611 original size:22 final size:23
Alignment explanation
Indices: 14384566--14384611 Score: 67
Period size: 22 Copynumber: 2.0 Consensus size: 23
14384556 CTTTTTCTTT
*
14384566 TTTTTTTCTTTTTTCTTTCTTTCA
1 TTTTTTTC-TTTTTCATTCTTTCA
14384590 TTTTTTTC-TTTTCATTCTTTCA
1 TTTTTTTCTTTTTCATTCTTTCA
14384612 CTTCTTCTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 13 0.62
24 8 0.38
ACGTcount: A:0.07, C:0.17, G:0.00, T:0.76
Consensus pattern (23 bp):
TTTTTTTCTTTTTCATTCTTTCA
Found at i:14385032 original size:28 final size:29
Alignment explanation
Indices: 14384967--14385033 Score: 68
Period size: 28 Copynumber: 2.4 Consensus size: 29
14384957 TGGTTTTGTT
*
14384967 TTTTGTTTTTGGATTTTGGCTTTCTTGAC
1 TTTTGTTTTTGGATTTTGGCTTTCTGGAC
* * *
14384996 TTTT-CTTTTGGCTTTT-TCATTT-TGGAC
1 TTTTGTTTTTGGATTTTGGC-TTTCTGGAC
14385023 TTTTGTTTTTG
1 TTTTGTTTTTG
14385034 TGTCTTTGTT
Statistics
Matches: 31, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
27 9 0.29
28 18 0.58
29 4 0.13
ACGTcount: A:0.06, C:0.10, G:0.18, T:0.66
Consensus pattern (29 bp):
TTTTGTTTTTGGATTTTGGCTTTCTGGAC
Found at i:14385133 original size:1 final size:1
Alignment explanation
Indices: 14385122--14385183 Score: 52
Period size: 1 Copynumber: 62.0 Consensus size: 1
14385112 GTCATAACTA
* * * * * * **
14385122 TTTTTTCTTTTTTTTTGTTTTTGTTTTGTTTTTTTCTTTTTCTTTTTTTTTTAATTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
14385184 ATATGTTCTC
Statistics
Matches: 47, Mismatches: 14, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
1 47 1.00
ACGTcount: A:0.03, C:0.05, G:0.05, T:0.87
Consensus pattern (1 bp):
T
Found at i:14385155 original size:19 final size:18
Alignment explanation
Indices: 14385129--14385173 Score: 63
Period size: 19 Copynumber: 2.4 Consensus size: 18
14385119 CTATTTTTTC
* *
14385129 TTTTTTTTTGTTTTTGTT
1 TTTTTTTTTCTTTTTCTT
14385147 TTGTTTTTTTCTTTTTCTT
1 TT-TTTTTTTCTTTTTCTT
14385166 TTTTTTTT
1 TTTTTTTT
14385174 AATTTTTTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
18 8 0.33
19 16 0.67
ACGTcount: A:0.00, C:0.04, G:0.07, T:0.89
Consensus pattern (18 bp):
TTTTTTTTTCTTTTTCTT
Found at i:14388930 original size:20 final size:20
Alignment explanation
Indices: 14388888--14388932 Score: 65
Period size: 20 Copynumber: 2.2 Consensus size: 20
14388878 TATTTATATA
*
14388888 TATTTAATAAATAAATTTTT
1 TATTTAATAAATAAATTTAT
14388908 TATTTAATAATATAAA-TTAT
1 TATTTAATAA-ATAAATTTAT
14388928 TATTT
1 TATTT
14388933 TAGATTAATT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
20 18 0.78
21 5 0.22
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (20 bp):
TATTTAATAAATAAATTTAT
Found at i:14388994 original size:27 final size:27
Alignment explanation
Indices: 14388946--14389009 Score: 73
Period size: 27 Copynumber: 2.4 Consensus size: 27
14388936 ATTAATTAGA
14388946 ATTAATATAT-TTTTATTGAAAAAATAT
1 ATTAATATATATTTTATTGAAAAAAT-T
14388973 ATTAATATATATATTTA-T-AAAAAATT
1 ATTAATATATAT-TTTATTGAAAAAATT
14388999 ACTTAA-ATATA
1 A-TTAATATATA
14389010 CAAGATAAAA
Statistics
Matches: 34, Mismatches: 0, Indels: 7
0.83 0.00 0.17
Matches are distributed among these distances:
26 7 0.21
27 21 0.62
28 2 0.06
29 4 0.12
ACGTcount: A:0.52, C:0.02, G:0.02, T:0.45
Consensus pattern (27 bp):
ATTAATATATATTTTATTGAAAAAATT
Found at i:14389434 original size:11 final size:12
Alignment explanation
Indices: 14389388--14389441 Score: 51
Period size: 12 Copynumber: 4.6 Consensus size: 12
14389378 ATTATATGAT
14389388 AATTA-AATAAA
1 AATTATAATAAA
*
14389399 AAATATAA-AAA
1 AATTATAATAAA
*
14389410 TAA-TATAATTTAA
1 -AATTATAA-TAAA
14389423 AATTATAATAAA
1 AATTATAATAAA
14389435 AATTATA
1 AATTATA
14389442 TGAATTTGAT
Statistics
Matches: 35, Mismatches: 3, Indels: 9
0.74 0.06 0.19
Matches are distributed among these distances:
11 12 0.34
12 16 0.46
13 7 0.20
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (12 bp):
AATTATAATAAA
Found at i:14395453 original size:4 final size:5
Alignment explanation
Indices: 14395428--14395520 Score: 75
Period size: 5 Copynumber: 18.0 Consensus size: 5
14395418 TAGGTATATG
*
14395428 TTTTA TTTTA TTTTA TTTTA -TTTA TTTTTA TTCTA TTTCTA TTTTA TTTTTA
1 TTTTA TTTTA TTTTA TTTTA TTTTA -TTTTA TTTTA TTT-TA TTTTA -TTTTA
* * *
14395480 TTATTA TTATA TATTT- TTTTA -CTTC TTTTA TTTTTA TTTTA
1 TT-TTA TTTTA T-TTTA TTTTA TTTTA TTTTA -TTTTA TTTTA
14395521 GCTATTTACT
Statistics
Matches: 71, Mismatches: 8, Indels: 18
0.73 0.08 0.19
Matches are distributed among these distances:
4 9 0.13
5 36 0.51
6 26 0.37
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.75
Consensus pattern (5 bp):
TTTTA
Found at i:14395459 original size:6 final size:6
Alignment explanation
Indices: 14395428--14395519 Score: 50
Period size: 6 Copynumber: 15.5 Consensus size: 6
14395418 TAGGTATATG
* * *
14395428 TTTTA- TTTTAT TTTATTT TATTTAT TTTTA- TTCTAT TTCTA- TTTTAT
1 TTTTAT TTTTAT TTT-TAT T-TTTAT TTTTAT TTTTAT TTTTAT TTTTAT
* * * *
14395475 TTTTAT TATTAT TATATAT TTTT-T TACTT-C TTTTAT TTTTAT TTT
1 TTTTAT TTTTAT T-TTTAT TTTTAT T-TTTAT TTTTAT TTTTAT TTT
14395520 AGCTATTTAC
Statistics
Matches: 67, Mismatches: 12, Indels: 15
0.71 0.13 0.16
Matches are distributed among these distances:
5 17 0.25
6 38 0.57
7 10 0.15
8 2 0.03
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (6 bp):
TTTTAT
Found at i:14395470 original size:11 final size:10
Alignment explanation
Indices: 14395428--14395520 Score: 75
Period size: 11 Copynumber: 9.0 Consensus size: 10
14395418 TAGGTATATG
14395428 TTTTATTTTA
1 TTTTATTTTA
14395438 TTTTATTTTA
1 TTTTATTTTA
14395448 -TTTATTTTTA
1 TTTTA-TTTTA
*
14395458 TTCTATTTCTA
1 TTTTATTT-TA
14395469 TTTTATTTTTA
1 TTTTA-TTTTA
*
14395480 TTATTATTATA
1 TT-TTATTTTA
14395491 TATTT-TTTTA
1 T-TTTATTTTA
* *
14395501 -CTTCTTTTA
1 TTTTATTTTA
14395510 TTTTTATTTTA
1 -TTTTATTTTA
14395521 GCTATTTACT
Statistics
Matches: 67, Mismatches: 7, Indels: 17
0.74 0.08 0.19
Matches are distributed among these distances:
8 2 0.03
9 9 0.13
10 22 0.33
11 27 0.40
12 7 0.10
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.75
Consensus pattern (10 bp):
TTTTATTTTA
Found at i:14395484 original size:31 final size:30
Alignment explanation
Indices: 14395431--14395489 Score: 84
Period size: 31 Copynumber: 1.9 Consensus size: 30
14395421 GTATATGTTT
*
14395431 TATTTTATTTTATTTTATTTATTTTTATTC
1 TATTTTATTTTATTTTATTTATTATTATTC
14395461 TATTTCTATTTTATTTT-TATTATTATTAT
1 TATTT-TATTTTATTTTAT-TTATTATTAT
14395490 ATATTTTTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 6 0.23
31 20 0.77
ACGTcount: A:0.22, C:0.03, G:0.00, T:0.75
Consensus pattern (30 bp):
TATTTTATTTTATTTTATTTATTATTATTC
Found at i:14395512 original size:41 final size:37
Alignment explanation
Indices: 14395428--14395519 Score: 98
Period size: 36 Copynumber: 2.4 Consensus size: 37
14395418 TAGGTATATG
14395428 TTTTATTTTA-TTTTATTTTATTTATTTTTATTCTAT
1 TTTTATTTTATTTTTATTTTATTTATTTTTATTCTAT
* *
14395464 TTCTATTTTATTTTTATTATTATTATATATTTTTTTACT-T
1 TTTTATTTTATTTTTATT-TTATT-TAT-TTTTATT-CTAT
14395504 CTTTTATTTTTATTTT
1 -TTTTA-TTTTATTTT
14395520 AGCTATTTAC
Statistics
Matches: 46, Mismatches: 3, Indels: 8
0.81 0.05 0.14
Matches are distributed among these distances:
36 9 0.20
37 7 0.15
38 5 0.11
39 3 0.07
40 7 0.15
41 6 0.13
42 9 0.20
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.76
Consensus pattern (37 bp):
TTTTATTTTATTTTTATTTTATTTATTTTTATTCTAT
Found at i:14395520 original size:41 final size:41
Alignment explanation
Indices: 14395428--14395520 Score: 111
Period size: 43 Copynumber: 2.2 Consensus size: 41
14395418 TAGGTATATG
* *
14395428 TTTTATTTTATTTTATTTTATTTATTTTTATTCTATTTCTA
1 TTTTATTTTATTTTATTATATTTATTTTTATTCTATTTATA
14395469 TTTTATTTTTATTATTATTATATATT-TTTTTACTTCT-TTTAT-
1 TTTTA-TTTTATT-TTATTATAT-TTATTTTTA-TTCTATTTATA
14395511 TTTTATTTTA
1 TTTTATTTTA
14395521 GCTATTTACT
Statistics
Matches: 46, Mismatches: 2, Indels: 8
0.82 0.04 0.14
Matches are distributed among these distances:
41 10 0.22
42 12 0.26
43 18 0.39
44 6 0.13
ACGTcount: A:0.20, C:0.04, G:0.00, T:0.75
Consensus pattern (41 bp):
TTTTATTTTATTTTATTATATTTATTTTTATTCTATTTATA
Found at i:14396553 original size:5 final size:5
Alignment explanation
Indices: 14396543--14396611 Score: 54
Period size: 5 Copynumber: 13.6 Consensus size: 5
14396533 TCTTTTTACC
* *
14396543 TTTAT TTTATT TTTGT TTTACT TTT-C TTTAT TTTA- TTT-T TTTAT TTTCACT
1 TTTAT TTTA-T TTTAT TTTA-T TTTAT TTTAT TTTAT TTTAT TTTAT TTT-A-T
*
14396594 TTTAT TTTGT TTTAT TTT
1 TTTAT TTTAT TTTAT TTT
14396612 CTTTAAATAA
Statistics
Matches: 51, Mismatches: 6, Indels: 14
0.72 0.08 0.20
Matches are distributed among these distances:
4 9 0.18
5 28 0.55
6 10 0.20
7 4 0.08
ACGTcount: A:0.13, C:0.06, G:0.03, T:0.78
Consensus pattern (5 bp):
TTTAT
Found at i:14396736 original size:116 final size:113
Alignment explanation
Indices: 14396616--14397135 Score: 591
Period size: 116 Copynumber: 4.5 Consensus size: 113
14396606 TATTTTCTTT
** * *
14396616 AAATAAAAATAAAAAAAATATTTTTGGTGAAAAGTTAAAAGTATCAATTTTCCTTGAAAATCAAA
1 AAATAAATTTAAAAAAAATATTTTTGG-GAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA
* *
14396681 GTTTCCAAAGAA-TATTTTTG-GGAAAAAGTTGAAAGTATCAATTTTCCTTAA
64 -TTT-CAAAAAAGGATTTTTGAGG-AAAAGTTGAAAGTATCAATTTTCCTTAA
** * *
14396732 AAATAAATTTCCAACAAATATTTTTGGGGAAAAGTTGAAAGTATTAATTTTCCTTAAAAATAAAA
1 AAATAAATTTAAAAAAAATATTTTT-GGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAA
* *
14396797 TTT-TAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
64 TTTCAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
****
14396846 AAATAAAATTTCAAAAAAGGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAA
1 AAAT-AAATTT-AAAAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAA
* * *
14396911 ATTTTCAAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTCTCCTTGA
63 A-TTTCAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
* ** *
14396963 AAATCGAAGTTTCCAAAAAATATTTTTGAGGAAAAGTTGAAAATATCAATTTTCCTTAAAAATAA
1 AAAT--AAATTTAAAAAAAATATTTTTG-GGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAA
* *
14397028 ATCTTCAAAAAA-TATTTTTG-GAGAAAAGTTGAAAGTATCAATTTTCTTTAA
63 AT-TTCAAAAAAGGATTTTTGAG-GAAAAGTTGAAAGTATCAATTTTCCTTAA
14397079 AAATAAATTTCCAAAAAAAAATACTTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 AAATAAATTT---AAAAAAAATA-TTTTT-GGGAAAAGTTGAAAGTATCAATTTTCC
14397136 CTGCACAAGA
Statistics
Matches: 346, Mismatches: 42, Indels: 30
0.83 0.10 0.07
Matches are distributed among these distances:
113 4 0.01
114 43 0.12
115 16 0.05
116 134 0.39
117 113 0.33
118 35 0.10
119 1 0.00
ACGTcount: A:0.44, C:0.08, G:0.13, T:0.34
Consensus pattern (113 bp):
AAATAAATTTAAAAAAAATATTTTTGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAATT
TCAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAA
Found at i:14396769 original size:57 final size:58
Alignment explanation
Indices: 14396628--14397135 Score: 625
Period size: 57 Copynumber: 8.7 Consensus size: 58
14396618 ATAAAAATAA
* * * *
14396628 AAAAAATATTTTTGGTGAAAAGTTAAAAGTATCAATTTTCCTTGAAAATCAAAGTTTCC
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAAATTTCC
* *
14396687 AAAGAATATTTTTGGGAAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTCC
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCC
* * *
14396744 AACAAATATTTTTGGGGAAAAGTTGAAAGTATTAATTTTCCTTAAAAATAAAATTT-T
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCC
*** *
14396801 AAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTT-C
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCC
** * *
14396858 AAAAAAGGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAATTTTC
1 AAAAAA--TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCC
** * * * * *
14396917 AAAAAAGGGTTTTTGAGGAAAAGTTGAAAGTATCAATTCTCCTTGAAAATCGAAGTTTCC
1 AAAAAA-TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAAT-AAAATTTCC
* *
14396977 AAAAAATATTTTTGAGGAAAAGTTGAAAATATCAATTTTCCTTAAAAAT-AAATCTT-C
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAAT-TTCC
* *
14397034 AAAAAATATTTTTGGAGAAAAGTTGAAAGTATCAATTTTCTTTAAAAAT-AAATTTCC
1 AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCC
14397091 AAAAAAAAATACTTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 ---AAAAAATA-TTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
14397136 CTGCACAAGA
Statistics
Matches: 402, Mismatches: 35, Indels: 22
0.88 0.08 0.05
Matches are distributed among these distances:
56 2 0.00
57 161 0.40
58 56 0.14
59 132 0.33
60 20 0.05
61 31 0.08
ACGTcount: A:0.44, C:0.08, G:0.14, T:0.34
Consensus pattern (58 bp):
AAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCTTAAAAATAAAATTTCC
Found at i:14402377 original size:42 final size:42
Alignment explanation
Indices: 14402330--14402428 Score: 157
Period size: 42 Copynumber: 2.4 Consensus size: 42
14402320 ATGATTGTCA
14402330 AGGAGCAATTTACTTTCCAAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTCCAAAAGTCGTGGTGCCTCTGTTTAG
* *
14402372 AGGAGCAATTTATTTTTCAAAAGTCGTGGTGCCTCTGTTTAG
1 AGGAGCAATTTACTTTCCAAAAGTCGTGGTGCCTCTGTTTAG
*
14402414 AAGAGC-A-TTACTTTC
1 AGGAGCAATTTACTTTC
14402429 AAGTCCCTTT
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
40 6 0.12
41 1 0.02
42 45 0.87
ACGTcount: A:0.25, C:0.17, G:0.22, T:0.35
Consensus pattern (42 bp):
AGGAGCAATTTACTTTCCAAAAGTCGTGGTGCCTCTGTTTAG
Found at i:14402507 original size:42 final size:41
Alignment explanation
Indices: 14402461--14402578 Score: 173
Period size: 41 Copynumber: 2.9 Consensus size: 41
14402451 TCAAAGTCGT
14402461 AAGTCGTGGTGCCTCTATTTAGAGGAGCAATTTACTTTCCCA
1 AAGTCGTGGTGCCTCTATTTAGAGGAGCAATTTA-TTTCCCA
* *
14402503 AAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTCCA
1 AAGTCGTGGTGCCTCTATTTAGAGGAGCAATTTATTTCCCA
* * * *
14402544 AAGTCGTTGAGCCTCTAATTAGAGGAGCCATTTAT
1 AAGTCGTGGTGCCTCTATTTAGAGGAGCAATTTAT
14402579 GTTTCTCAGA
Statistics
Matches: 69, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
41 36 0.52
42 33 0.48
ACGTcount: A:0.25, C:0.19, G:0.23, T:0.34
Consensus pattern (41 bp):
AAGTCGTGGTGCCTCTATTTAGAGGAGCAATTTATTTCCCA
Found at i:14402558 original size:41 final size:41
Alignment explanation
Indices: 14402461--14402614 Score: 173
Period size: 42 Copynumber: 3.7 Consensus size: 41
14402451 TCAAAGTCGT
* *
14402461 AAGTCGTGGTGCCTCTATTTAGAGGAGCAATTTACTTTCCCA
1 AAGTCGTGGAGCCTCTATTTAGAGGAGCAATTTA-TTTTCCA
* *
14402503 AAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTCCA
1 AAGTCGTGGAGCCTCTATTTAGAGGAGCAATTTATTTTCCA
* * *
14402544 AAGTCGTTGAGCCTCTAATTAGAGGAGCCATTTATGTTTCTCA
1 AAGTCGTGGAGCCTCTATTTAGAGGAGCAATTTAT-TTTC-CA
* * * **
14402587 GAGTCGTTGAGCCTTTGCTTAGAGGAGC
1 AAGTCGTGGAGCCTCTATTTAGAGGAGC
14402615 TTTGGTCAAA
Statistics
Matches: 99, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
41 36 0.36
42 37 0.37
43 26 0.26
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.34
Consensus pattern (41 bp):
AAGTCGTGGAGCCTCTATTTAGAGGAGCAATTTATTTTCCA
Found at i:14402609 original size:43 final size:41
Alignment explanation
Indices: 14402461--14402614 Score: 166
Period size: 41 Copynumber: 3.7 Consensus size: 41
14402451 TCAAAGTCGT
* * *
14402461 AAGTCGTGGTGCCTCT-ATTTAGAGGAGCAATTTACTTTCCCA
1 AAGTCGTTGAGCCTCTGA-TTAGAGGAGCAATTTA-TTTTCCA
* * *
14402503 AAGTCGTGGTGCCTCTGTTTAGAGGAGCAATTTATTTTCCA
1 AAGTCGTTGAGCCTCTGATTAGAGGAGCAATTTATTTTCCA
* *
14402544 AAGTCGTTGAGCCTCTAATTAGAGGAGCCATTTATGTTTCTCA
1 AAGTCGTTGAGCCTCTGATTAGAGGAGCAATTTAT-TTTC-CA
* * *
14402587 GAGTCGTTGAGCCTTTGCTTAGAGGAGC
1 AAGTCGTTGAGCCTCTGATTAGAGGAGC
14402615 TTTGGTCAAA
Statistics
Matches: 98, Mismatches: 11, Indels: 5
0.86 0.10 0.04
Matches are distributed among these distances:
41 36 0.37
42 36 0.37
43 26 0.27
ACGTcount: A:0.23, C:0.19, G:0.25, T:0.34
Consensus pattern (41 bp):
AAGTCGTTGAGCCTCTGATTAGAGGAGCAATTTATTTTCCA
Found at i:14402628 original size:1 final size:1
Alignment explanation
Indices: 14402622--14402672 Score: 57
Period size: 1 Copynumber: 51.0 Consensus size: 1
14402612 AGCTTTGGTC
* * * * *
14402622 AAAAAAATAAAAAAAAACAAAAAAATAAAAAAACAAAAAAACAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
14402673 TGAAAATGTT
Statistics
Matches: 40, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
1 40 1.00
ACGTcount: A:0.90, C:0.06, G:0.00, T:0.04
Consensus pattern (1 bp):
A
Done.