Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr12 ID=Chr12-JGI_221_v2.0
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: 35429946
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 509281 characters in sequence are not A, C, G, or T
File 52 of 120
Found at i:14571165 original size:23 final size:23
Alignment explanation
Indices: 14571139--14571185 Score: 67
Period size: 23 Copynumber: 2.0 Consensus size: 23
14571129 TAAGTATTTT
14571139 GGTGTTGTCCCGTTATGCACTTC
1 GGTGTTGTCCCGTTATGCACTTC
** *
14571162 GGTGTTGTCTTGTTATGCGCTTC
1 GGTGTTGTCCCGTTATGCACTTC
14571185 G
1 G
14571186 ACGTTATCCC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.06, C:0.21, G:0.30, T:0.43
Consensus pattern (23 bp):
GGTGTTGTCCCGTTATGCACTTC
Found at i:14571357 original size:29 final size:29
Alignment explanation
Indices: 14571317--14571504 Score: 143
Period size: 29 Copynumber: 6.4 Consensus size: 29
14571307 CTATCTAATT
*
14571317 ATGAAAAGGGATGGTGACAACCATC-AACA
1 ATGAAAAGGGATGGTGACGACCATCGAA-A
* *
14571346 ATGAAAAGGGATAGTGACGACCACCGAAA
1 ATGAAAAGGGATGGTGACGACCATCGAAA
* * * * *
14571375 ACTGAAAAGGGATAGCT-TCGGCTATCGAATT
1 A-TGAAAAGGGAT-GGTGACGACCATCGAA-A
* * * *
14571406 GTGAAAAGGGA-GCT-TCGACTATC-AAA
1 ATGAAAAGGGATGGTGACGACCATCGAAA
* *
14571432 TTATGAAAAGGGATGGTGACAACCATCAAAA
1 --ATGAAAAGGGATGGTGACGACCATCGAAA
*
14571463 ATGAAAAGGGATGGTGACGACCATCAAATA
1 ATGAAAAGGGATGGTGACGACCATCGAA-A
14571493 ATGAAAAGGGAT
1 ATGAAAAGGGAT
14571505 AGCTTTCGCT
Statistics
Matches: 130, Mismatches: 19, Indels: 19
0.77 0.11 0.11
Matches are distributed among these distances:
27 2 0.02
28 21 0.16
29 53 0.41
30 50 0.38
31 4 0.03
ACGTcount: A:0.42, C:0.14, G:0.26, T:0.18
Consensus pattern (29 bp):
ATGAAAAGGGATGGTGACGACCATCGAAA
Found at i:14571411 original size:30 final size:30
Alignment explanation
Indices: 14571377--14571532 Score: 108
Period size: 30 Copynumber: 5.3 Consensus size: 30
14571367 CACCGAAAAC
* * *
14571377 TGAAAAGGGATAGCTTCGGCTATCGAATTG
1 TGAAAAGGGATAGCTTCGACTATCAAATTA
14571407 TGAAAAGGG--AGCTTCGACTATCAAATTA
1 TGAAAAGGGATAGCTTCGACTATCAAATTA
* * * * *
14571435 TGAAAAGGGAT-GGTGACAACCATCAAA-AA
1 TGAAAAGGGATAGCT-TCGACTATCAAATTA
* * * *
14571464 TGAAAAGGGAT-GGTGACGACCATCAAATAA
1 TGAAAAGGGATAGCT-TCGACTATCAAATTA
* **
14571494 TGAAAAGGGATAGCTTTCG-CTATCGAGCTA
1 TGAAAAGGGATAGC-TTCGACTATCAAATTA
14571524 TGAAAAGGG
1 TGAAAAGGG
14571533 TTGGGACAAC
Statistics
Matches: 104, Mismatches: 16, Indels: 12
0.79 0.12 0.09
Matches are distributed among these distances:
28 25 0.24
29 29 0.28
30 46 0.44
31 3 0.03
32 1 0.01
ACGTcount: A:0.38, C:0.13, G:0.27, T:0.21
Consensus pattern (30 bp):
TGAAAAGGGATAGCTTCGACTATCAAATTA
Found at i:14571427 original size:28 final size:28
Alignment explanation
Indices: 14571377--14571444 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
14571367 CACCGAAAAC
* * *
14571377 TGAAAAGGGATAGCTTCGGCTATCGAATTG
1 TGAAAAGGG--AGCTTCGACTATCAAATTA
14571407 TGAAAAGGGAGCTTCGACTATCAAATTA
1 TGAAAAGGGAGCTTCGACTATCAAATTA
14571435 TGAAAAGGGA
1 TGAAAAGGGA
14571445 TGGTGACAAC
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
28 26 0.74
30 9 0.26
ACGTcount: A:0.37, C:0.12, G:0.28, T:0.24
Consensus pattern (28 bp):
TGAAAAGGGAGCTTCGACTATCAAATTA
Found at i:14571528 original size:117 final size:118
Alignment explanation
Indices: 14571287--14571532 Score: 354
Period size: 117 Copynumber: 2.1 Consensus size: 118
14571277 AGAAACAAGA
* * *
14571287 ATGAAAAGGGATAGCCTCGGCTATCTAATTATGAAAAGGGATGGTGACAACCATCAACAATGAAA
1 ATGAAAAGGGA-AGCCTCGACTATCAAATTATGAAAAGGGATGGTGACAACCATCAAAAATGAAA
* *
14571352 AGGGATAGTGACGACCACCGAAAACTGAAAAGGGATAGCTTCGGCTATCGAATT
65 AGGGATAGTGACGACCACCGAAAAATGAAAAGGGATAGCTTCGGCTATCGAACT
* *
14571406 GTGAAAAGGG-AGCTTCGACTATCAAATTATGAAAAGGGATGGTGACAACCATCAAAAATGAAAA
1 ATGAAAAGGGAAGCCTCGACTATCAAATTATGAAAAGGGATGGTGACAACCATCAAAAATGAAAA
* * *
14571470 GGGATGGTGACGACCATC-AAATAATGAAAAGGGATAGCTTTC-GCTATCGAGCT
66 GGGATAGTGACGACCACCGAAA-AATGAAAAGGGATAGC-TTCGGCTATCGAACT
14571523 ATGAAAAGGG
1 ATGAAAAGGG
14571533 TTGGGACAAC
Statistics
Matches: 114, Mismatches: 11, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
116 3 0.03
117 99 0.87
118 3 0.03
119 9 0.08
ACGTcount: A:0.39, C:0.15, G:0.26, T:0.20
Consensus pattern (118 bp):
ATGAAAAGGGAAGCCTCGACTATCAAATTATGAAAAGGGATGGTGACAACCATCAAAAATGAAAA
GGGATAGTGACGACCACCGAAAAATGAAAAGGGATAGCTTCGGCTATCGAACT
Found at i:14571942 original size:17 final size:17
Alignment explanation
Indices: 14571920--14571954 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
14571910 CATGTATAGG
*
14571920 TGTTTTGGTTGATGTTA
1 TGTTTTGGCTGATGTTA
14571937 TGTTTTGGCTGATGTTA
1 TGTTTTGGCTGATGTTA
14571954 T
1 T
14571955 AGCCATTATG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.11, C:0.03, G:0.29, T:0.57
Consensus pattern (17 bp):
TGTTTTGGCTGATGTTA
Found at i:14574048 original size:20 final size:19
Alignment explanation
Indices: 14574025--14574075 Score: 57
Period size: 20 Copynumber: 2.6 Consensus size: 19
14574015 AGGAGCACTA
* *
14574025 GAGTGCAATCAGGGGTACCG
1 GAGTGCAATCAAGGGCA-CG
*
14574045 GAGTGCAGTCAAGGGCACG
1 GAGTGCAATCAAGGGCACG
14574064 GAAGTGCAATCA
1 G-AGTGCAATCA
14574076 TGTACATTTT
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
19 3 0.12
20 23 0.88
ACGTcount: A:0.29, C:0.20, G:0.37, T:0.14
Consensus pattern (19 bp):
GAGTGCAATCAAGGGCACG
Found at i:14577631 original size:20 final size:21
Alignment explanation
Indices: 14577573--14577632 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 21
14577563 TTATACTTAA
14577573 TTAATCTAATCTAATTTAATAAATC
1 TTAAT-TAATC-AA-TT-ATAAATC
* *
14577598 TTAATTAGTTAATTATAAA-C
1 TTAATTAATCAATTATAAATC
14577618 TTAATTAATCAATTA
1 TTAATTAATCAATTA
14577633 AGTGGGTGAC
Statistics
Matches: 31, Mismatches: 4, Indels: 5
0.77 0.10 0.12
Matches are distributed among these distances:
20 14 0.45
21 5 0.16
22 2 0.06
23 2 0.06
24 3 0.10
25 5 0.16
ACGTcount: A:0.45, C:0.08, G:0.02, T:0.45
Consensus pattern (21 bp):
TTAATTAATCAATTATAAATC
Found at i:14578424 original size:17 final size:17
Alignment explanation
Indices: 14578265--14578506 Score: 202
Period size: 17 Copynumber: 14.2 Consensus size: 17
14578255 ACCTATGACA
*
14578265 ATATGCAAGCTGTGTTT
1 ATATGCGAGCTGTGTTT
* **
14578282 ATATGTGAGCCATGTTT
1 ATATGCGAGCTGTGTTT
* *
14578299 ATATACGAGTTGTGTTT
1 ATATGCGAGCTGTGTTT
* *
14578316 ATATGTGGAGTTGTGTTT
1 ATATG-CGAGCTGTGTTT
* *
14578334 ATATGTGAGCTATGTTT
1 ATATGCGAGCTGTGTTT
* *
14578351 GTATGCG-GGTAGT-TTT
1 ATATGCGAGCT-GTGTTT
* *
14578367 ATTATTCGAGCTATGTTT
1 A-TATGCGAGCTGTGTTT
14578385 ATATGCG-GCTGGTGTTT
1 ATATGCGAGCT-GTGTTT
*
14578402 ATATGCAAGCTGTGTTT
1 ATATGCGAGCTGTGTTT
* *
14578419 ATATGCTAGCCGTGTTT
1 ATATGCGAGCTGTGTTT
* * *
14578436 ATATGCCAGCAGTGTAT
1 ATATGCGAGCTGTGTTT
*
14578453 ATATGCGAGTTGTGTTT
1 ATATGCGAGCTGTGTTT
* *
14578470 ATATGCTAGTTGTGTTT
1 ATATGCGAGCTGTGTTT
* *
14578487 ATATGCAAGTTGTGTTT
1 ATATGCGAGCTGTGTTT
14578504 ATA
1 ATA
14578507 AAATATCAAT
Statistics
Matches: 182, Mismatches: 36, Indels: 14
0.78 0.16 0.06
Matches are distributed among these distances:
16 8 0.04
17 149 0.82
18 25 0.14
ACGTcount: A:0.21, C:0.09, G:0.26, T:0.44
Consensus pattern (17 bp):
ATATGCGAGCTGTGTTT
Found at i:14581886 original size:32 final size:32
Alignment explanation
Indices: 14581826--14581891 Score: 82
Period size: 32 Copynumber: 2.1 Consensus size: 32
14581816 CCTAATTCCT
14581826 AAAAAACCTAACCCTAACCCTAACAAAAT-TA
1 AAAAAACCTAACCCTAACCCTAACAAAATCTA
* *
14581857 AAAAAACCCTAACTCTAACACTTAA-AAAATCTA
1 AAAAAA-CCTAACCCTAAC-CCTAACAAAATCTA
14581890 AA
1 AA
14581892 GAGAGAGTGT
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
31 6 0.20
32 16 0.53
33 8 0.27
ACGTcount: A:0.56, C:0.26, G:0.00, T:0.18
Consensus pattern (32 bp):
AAAAAACCTAACCCTAACCCTAACAAAATCTA
Found at i:14582329 original size:27 final size:27
Alignment explanation
Indices: 14582291--14582360 Score: 86
Period size: 27 Copynumber: 2.6 Consensus size: 27
14582281 ATGTTTGGTG
14582291 GTGCCAATGTCATAAGTGACACCAATA
1 GTGCCAATGTCATAAGTGACACCAATA
* * * * *
14582318 GTGCCCATGTCATAGGTGGCACCAGTG
1 GTGCCAATGTCATAAGTGACACCAATA
*
14582345 GTGCCTATGTCATAAG
1 GTGCCAATGTCATAAG
14582361 CAGTACTAGT
Statistics
Matches: 36, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
27 36 1.00
ACGTcount: A:0.27, C:0.23, G:0.26, T:0.24
Consensus pattern (27 bp):
GTGCCAATGTCATAAGTGACACCAATA
Found at i:14588567 original size:22 final size:23
Alignment explanation
Indices: 14588540--14588584 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
14588530 AGGTATCTAC
14588540 AAATCAAATC-TCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
*
14588562 AAATCATATCTTCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
14588585 TATCATATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.47, C:0.18, G:0.04, T:0.31
Consensus pattern (23 bp):
AAATCAAATCTTCTAAGATTACA
Found at i:14588589 original size:22 final size:22
Alignment explanation
Indices: 14588537--14588594 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 22
14588527 GAAAGGTATC
*
14588537 TACAAATCAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
14588558 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
14588581 TACATATCATATCT
1 TACAAATCATATCT
14588595 ACGATTGTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 3 0.09
22 19 0.58
23 11 0.33
ACGTcount: A:0.43, C:0.19, G:0.03, T:0.34
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:14593696 original size:22 final size:23
Alignment explanation
Indices: 14593669--14593713 Score: 74
Period size: 23 Copynumber: 2.0 Consensus size: 23
14593659 AGGTATCTAC
14593669 AAATCAAATC-TCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
*
14593691 AAATCATATCTTCTAAGATTACA
1 AAATCAAATCTTCTAAGATTACA
14593714 TATCATATCT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 9 0.43
23 12 0.57
ACGTcount: A:0.47, C:0.18, G:0.04, T:0.31
Consensus pattern (23 bp):
AAATCAAATCTTCTAAGATTACA
Found at i:14593718 original size:22 final size:22
Alignment explanation
Indices: 14593666--14593723 Score: 82
Period size: 22 Copynumber: 2.6 Consensus size: 22
14593656 GAAAGGTATC
*
14593666 TACAAATCAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
14593687 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
*
14593710 TACATATCATATCT
1 TACAAATCATATCT
14593724 ACGATTTTAT
Statistics
Matches: 33, Mismatches: 2, Indels: 3
0.87 0.05 0.08
Matches are distributed among these distances:
21 3 0.09
22 19 0.58
23 11 0.33
ACGTcount: A:0.43, C:0.19, G:0.03, T:0.34
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:14594017 original size:3 final size:3
Alignment explanation
Indices: 14594009--14594066 Score: 116
Period size: 3 Copynumber: 19.3 Consensus size: 3
14593999 AGATTGTTTA
14594009 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
14594057 AAT AAT AAT A
1 AAT AAT AAT A
14594067 TCGGATCAGA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 55 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
AAT
Found at i:14594953 original size:2 final size:2
Alignment explanation
Indices: 14594946--14594972 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
14594936 ATTCTCCTAG
14594946 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
14594973 CTTAAGGGAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:14596222 original size:42 final size:42
Alignment explanation
Indices: 14596145--14596500 Score: 380
Period size: 42 Copynumber: 8.4 Consensus size: 42
14596135 ACGTCGCAAA
* * *
14596145 CTTTTGCGGCGCTTACAGAAAAAAAACGCCCCTAAAGATCATGCT
1 CTTTAGCGGCGCTT--AG-AAAAAAACGCCGCTAAAGATCATGTT
*
14596190 CTTTAGCAGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
* * * *
14596232 CTTTAGCGGTGCTAAAAAAATAAACGCCACTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAA-AAACGCCGCTAAAGATCATGTT
* *
14596275 CTTTAACGGCGCTTAGAAATAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
* * *
14596317 CTTTAGCGACGCTAAGGAAATAAACGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTA-GAAAAAAACGCCGCTAAAGATCATGTT
* *
14596360 CTTTAGCGACGCTTAG-AAAAAAGGCCGCTAAAGATCATGTT
1 CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
* * * *
14596401 CTTTAGCGGCGCTTTGGAAGAAAACGCCTCTAAA-AGTGATGTT
1 CTTTAGCGGCGC-TTAGAAAAAAACGCCGCTAAAGA-TCATGTT
* ** *
14596444 CTATAGCGGCGCTT-GTTCAAAAATGCCGCTAAA-AGT-AGTGTT
1 CTTTAGCGGCGCTTAG-AAAAAAACGCCGCTAAAGA-TCA-TGTT
14596486 CTTTAGCGGCGCTTA
1 CTTTAGCGGCGCTTA
14596501 TTTCACAAAC
Statistics
Matches: 269, Mismatches: 34, Indels: 18
0.84 0.11 0.06
Matches are distributed among these distances:
41 36 0.13
42 112 0.42
43 109 0.41
45 12 0.04
ACGTcount: A:0.33, C:0.21, G:0.21, T:0.26
Consensus pattern (42 bp):
CTTTAGCGGCGCTTAGAAAAAAACGCCGCTAAAGATCATGTT
Found at i:14596311 original size:85 final size:84
Alignment explanation
Indices: 14596145--14596498 Score: 378
Period size: 85 Copynumber: 4.2 Consensus size: 84
14596135 ACGTCGCAAA
* * * *
14596145 CTTTTGCGGCGCTTACAGAAAAA-AAACGCCCCTAAAGATCATGCTCTTTAGCAGCGCTTAGAAA
1 CTTTAGCGGCGC-TA-A-AAAAATAAACGCCACTAAAGATCATGTTCTTTAGCGGCGCTTAG-AA
14596209 AAAACGCCGCTAAAGATCATGTT
62 AAAACGCCGCTAAAGATCATGTT
* *
14596232 CTTTAGCGGTGCTAAAAAAATAAACGCCACTAAAGATCATGTTCTTTAACGGCGCTTAGAAATAA
1 CTTTAGCGGCGCTAAAAAAATAAACGCCACTAAAGATCATGTTCTTTAGCGGCGCTTAGAAA-AA
14596297 ACGCCGCTAAAGATCATGTT
65 ACGCCGCTAAAGATCATGTT
* ** * *
14596317 CTTTAGCGACGCTAAGGAAATAAACGCCGCTAAAGATCATGTTCTTTAGCGACGCTTAGAAAAAA
1 CTTTAGCGGCGCTAAAAAAATAAACGCCACTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAA
*
14596382 GGCCGCTAAAGATCATGTT
66 CGCCGCTAAAGATCATGTT
*** * * * * *
14596401 CTTTAGCGGCGCTTTGGAAGA-AAACGCCTCTAAA-AGTGATGTTCTATAGCGGCGCTT-GTTCA
1 CTTTAGCGGCGC-TAAAAAAATAAACGCCACTAAAGA-TCATGTTCTTTAGCGGCGCTTAG--AA
*
14596463 AAAATGCCGCTAAA-AGT-AGTGTT
62 AAAACGCCGCTAAAGA-TCA-TGTT
14596486 CTTTAGCGGCGCT
1 CTTTAGCGGCGCT
14596499 TATTTCACAA
Statistics
Matches: 234, Mismatches: 25, Indels: 19
0.84 0.09 0.07
Matches are distributed among these distances:
83 2 0.01
84 73 0.31
85 147 0.63
86 2 0.01
87 10 0.04
ACGTcount: A:0.32, C:0.21, G:0.21, T:0.25
Consensus pattern (84 bp):
CTTTAGCGGCGCTAAAAAAATAAACGCCACTAAAGATCATGTTCTTTAGCGGCGCTTAGAAAAAA
CGCCGCTAAAGATCATGTT
Found at i:14604030 original size:9 final size:9
Alignment explanation
Indices: 14604002--14604131 Score: 80
Period size: 9 Copynumber: 14.9 Consensus size: 9
14603992 GATTTAGGAA
14604002 TAAGTTATG
1 TAAGTTATG
*
14604011 T-A-TTATA
1 TAAGTTATG
14604018 TAAGTTATG
1 TAAGTTATG
14604027 TAAGTTATG
1 TAAGTTATG
*
14604036 TAAGTTGTG
1 TAAGTTATG
*
14604045 TAAGTTGTG
1 TAAGTTATG
14604054 T-A-TTATG
1 TAAGTTATG
* *
14604061 AAACTTATG
1 TAAGTTATG
*
14604070 TACGTTATG
1 TAAGTTATG
*
14604079 T--CTTATG
1 TAAGTTATG
*
14604086 TAAGTTATA
1 TAAGTTATG
14604095 TATTA-TTATG
1 TA--AGTTATG
14604105 TAGAG-TATG
1 TA-AGTTATG
14604114 TATTA-TTATG
1 TA--AGTTATG
14604124 TAAGTTAT
1 TAAGTTAT
14604132 TATGTAAGTA
Statistics
Matches: 95, Mismatches: 14, Indels: 24
0.71 0.11 0.18
Matches are distributed among these distances:
7 15 0.16
8 5 0.05
9 61 0.64
10 13 0.14
11 1 0.01
ACGTcount: A:0.32, C:0.02, G:0.18, T:0.48
Consensus pattern (9 bp):
TAAGTTATG
Found at i:14604105 original size:19 final size:19
Alignment explanation
Indices: 14604081--14604131 Score: 77
Period size: 19 Copynumber: 2.7 Consensus size: 19
14604071 ACGTTATGTC
14604081 TTATGTAAGTTATATATTA
1 TTATGTAAGTTATATATTA
*
14604100 TTATGTAGAG-TATGTATTA
1 TTATGTA-AGTTATATATTA
14604119 TTATGTAAGTTAT
1 TTATGTAAGTTAT
14604132 TATGTAAGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
18 2 0.07
19 25 0.86
20 2 0.07
ACGTcount: A:0.33, C:0.00, G:0.16, T:0.51
Consensus pattern (19 bp):
TTATGTAAGTTATATATTA
Found at i:14604133 original size:12 final size:12
Alignment explanation
Indices: 14604116--14604277 Score: 79
Period size: 12 Copynumber: 13.8 Consensus size: 12
14604106 AGAGTATGTA
14604116 TTATTATGTAAG
1 TTATTATGTAAG
14604128 TTATTATGTAAG
1 TTATTATGTAAG
** *
14604140 -TAGGGATGTAGG
1 TTA-TTATGTAAG
*
14604152 ATATTATGTAAG
1 TTATTATGTAAG
14604164 ---TTATGTAAG
1 TTATTATGTAAG
* * * **
14604173 TTTTTGTTTTTG
1 TTATTATGTAAG
*
14604185 TGTATTATGTAAC
1 T-TATTATGTAAG
* *
14604198 TTATTTAATTTATGG
1 TTA-TT-ATGTA-AG
* *
14604213 ATGTTATGT-A-
1 TTATTATGTAAG
14604223 TTATTATGT-A-
1 TTATTATGTAAG
14604233 TTATTATGTAAG
1 TTATTATGTAAG
*
14604245 TTATTATGTAGG
1 TTATTATGTAAG
14604257 TTATTATGTAAG
1 TTATTATGTAAG
*
14604269 TCATTATGT
1 TTATTATGT
14604278 TGGTTATGTA
Statistics
Matches: 111, Mismatches: 28, Indels: 22
0.69 0.17 0.14
Matches are distributed among these distances:
9 9 0.08
10 17 0.15
11 3 0.03
12 62 0.56
13 13 0.12
14 6 0.05
15 1 0.01
ACGTcount: A:0.28, C:0.01, G:0.19, T:0.51
Consensus pattern (12 bp):
TTATTATGTAAG
Found at i:14604265 original size:24 final size:24
Alignment explanation
Indices: 14604216--14604284 Score: 92
Period size: 24 Copynumber: 3.0 Consensus size: 24
14604206 TTTATGGATG
14604216 TTATGT-A-TTATTATGTA--TTA
1 TTATGTAAGTTATTATGTAGGTTA
14604236 TTATGTAAGTTATTATGTAGGTTA
1 TTATGTAAGTTATTATGTAGGTTA
* *
14604260 TTATGTAAGTCATTATGTTGGTTA
1 TTATGTAAGTTATTATGTAGGTTA
14604284 T
1 T
14604285 GTAAGTTGTG
Statistics
Matches: 43, Mismatches: 2, Indels: 4
0.88 0.04 0.08
Matches are distributed among these distances:
20 6 0.14
21 1 0.02
22 10 0.23
24 26 0.60
ACGTcount: A:0.28, C:0.01, G:0.17, T:0.54
Consensus pattern (24 bp):
TTATGTAAGTTATTATGTAGGTTA
Found at i:14604286 original size:21 final size:22
Alignment explanation
Indices: 14604236--14604290 Score: 67
Period size: 24 Copynumber: 2.5 Consensus size: 22
14604226 TTATGTATTA
*
14604236 TTATGTAAGTTATTATGTAGGTT
1 TTATGTAAGTCATTATGTAGG-T
*
14604259 ATTATGTAAGTCATTATGTTGG-
1 -TTATGTAAGTCATTATGTAGGT
14604281 TTATGTAAGT
1 TTATGTAAGT
14604291 TGTGATATGA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
21 10 0.34
24 19 0.66
ACGTcount: A:0.27, C:0.02, G:0.22, T:0.49
Consensus pattern (22 bp):
TTATGTAAGTCATTATGTAGGT
Found at i:14604437 original size:19 final size:19
Alignment explanation
Indices: 14604413--14604450 Score: 67
Period size: 19 Copynumber: 2.0 Consensus size: 19
14604403 ATGTATCGAT
14604413 TTTTAAAAATATATATAAA
1 TTTTAAAAATATATATAAA
*
14604432 TTTTAAATATATATATAAA
1 TTTTAAAAATATATATAAA
14604451 CTATATATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (19 bp):
TTTTAAAAATATATATAAA
Found at i:14604482 original size:9 final size:9
Alignment explanation
Indices: 14604468--14604548 Score: 51
Period size: 9 Copynumber: 9.0 Consensus size: 9
14604458 TAAATATTAA
14604468 TAAGTTATG
1 TAAGTTATG
14604477 TAAGTTATG
1 TAAGTTATG
* *
14604486 TATTA-TAAATT
1 TA--AGT-TATG
*
14604497 TAAGTTGTG
1 TAAGTTATG
14604506 TAAGTTATG
1 TAAGTTATG
14604515 -AA-TTATG
1 TAAGTTATG
*
14604522 TAAGATATG
1 TAAGTTATG
* *
14604531 TAAATTACG
1 TAAGTTATG
*
14604540 TAAGATATG
1 TAAGTTATG
14604549 AAATTTGAAC
Statistics
Matches: 53, Mismatches: 13, Indels: 12
0.68 0.17 0.15
Matches are distributed among these distances:
7 5 0.09
8 4 0.08
9 37 0.70
10 2 0.04
11 5 0.09
ACGTcount: A:0.38, C:0.01, G:0.19, T:0.42
Consensus pattern (9 bp):
TAAGTTATG
Found at i:14604542 original size:18 final size:17
Alignment explanation
Indices: 14604505--14604553 Score: 64
Period size: 18 Copynumber: 2.9 Consensus size: 17
14604495 TTTAAGTTGT
* *
14604505 GTAAGTTATG-AATTAT
1 GTAAGATATGAAATTAC
14604521 GTAAGATATGTAAATTAC
1 GTAAGATATG-AAATTAC
14604539 GTAAGATATGAAATT
1 GTAAGATATGAAATT
14604554 TGAACTTTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
16 9 0.31
17 5 0.17
18 15 0.52
ACGTcount: A:0.43, C:0.02, G:0.18, T:0.37
Consensus pattern (17 bp):
GTAAGATATGAAATTAC
Found at i:14604647 original size:15 final size:15
Alignment explanation
Indices: 14604627--14604661 Score: 70
Period size: 15 Copynumber: 2.3 Consensus size: 15
14604617 AAAATAAAAC
14604627 TTTAAATACAATTTA
1 TTTAAATACAATTTA
14604642 TTTAAATACAATTTA
1 TTTAAATACAATTTA
14604657 TTTAA
1 TTTAA
14604662 TTAGGTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 20 1.00
ACGTcount: A:0.46, C:0.06, G:0.00, T:0.49
Consensus pattern (15 bp):
TTTAAATACAATTTA
Found at i:14604675 original size:28 final size:28
Alignment explanation
Indices: 14604643--14604731 Score: 85
Period size: 28 Copynumber: 3.2 Consensus size: 28
14604633 TACAATTTAT
14604643 TTAAATACAATTTATTTAATTAGGTAAA
1 TTAAATACAATTTATTTAATTAGGTAAA
*** * *
14604671 TTAAAATA-AAAAAATTTAAAATA--TAACT
1 TT-AAATACAATTTATTT-AATTAGGTAA-A
14604699 TTAAATACAATTTATTTAATTAGGTAAA
1 TTAAATACAATTTATTTAATTAGGTAAA
14604727 TTAAA
1 TTAAA
14604732 AATAAAATAG
Statistics
Matches: 45, Mismatches: 10, Indels: 12
0.67 0.15 0.18
Matches are distributed among these distances:
27 12 0.27
28 21 0.47
29 12 0.27
ACGTcount: A:0.53, C:0.03, G:0.04, T:0.39
Consensus pattern (28 bp):
TTAAATACAATTTATTTAATTAGGTAAA
Found at i:14604678 original size:56 final size:55
Alignment explanation
Indices: 14604616--14604738 Score: 167
Period size: 56 Copynumber: 2.2 Consensus size: 55
14604606 AATATTTAAA
*
14604616 AAAAATAAAACTTT-AAATACAATTTATTTAAATACAATTTATTTAATTAGGTAAATT
1 AAAAATAAAAATTTAAAATACAA---ATTTAAATACAATTTATTTAATTAGGTAAATT
* * *
14604673 AAAATAAAAAAATTTAAAATATAACTTTAAATACAATTTATTTAATTAGGTAAATT
1 AAAA-ATAAAAATTTAAAATACAAATTTAAATACAATTTATTTAATTAGGTAAATT
14604729 AAAAATAAAA
1 AAAAATAAAA
14604739 TAGAATATAT
Statistics
Matches: 59, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
55 5 0.08
56 35 0.59
57 4 0.07
58 8 0.14
59 7 0.12
ACGTcount: A:0.56, C:0.04, G:0.03, T:0.37
Consensus pattern (55 bp):
AAAAATAAAAATTTAAAATACAAATTTAAATACAATTTATTTAATTAGGTAAATT
Found at i:14606297 original size:45 final size:45
Alignment explanation
Indices: 14606225--14606312 Score: 140
Period size: 45 Copynumber: 2.0 Consensus size: 45
14606215 AAGGAGGAAG
* *
14606225 GAGGCGATTTAGGGATTTCGGATTTCAAGAAATTAGGCAAGAAAT
1 GAGGCGATTTACGGATTTCGGAATTCAAGAAATTAGGCAAGAAAT
* *
14606270 GAGGCGATTTACGGATTTGGGAATTCAAGAAATTGGGCAAGAA
1 GAGGCGATTTACGGATTTCGGAATTCAAGAAATTAGGCAAGAA
14606313 GGACGCAACA
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
45 39 1.00
ACGTcount: A:0.35, C:0.09, G:0.31, T:0.25
Consensus pattern (45 bp):
GAGGCGATTTACGGATTTCGGAATTCAAGAAATTAGGCAAGAAAT
Found at i:14606974 original size:12 final size:12
Alignment explanation
Indices: 14606957--14606983 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
14606947 AAATTAGGCC
14606957 ATTATTAATATT
1 ATTATTAATATT
14606969 ATTATTAATATT
1 ATTATTAATATT
14606981 ATT
1 ATT
14606984 TAAAAATTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (12 bp):
ATTATTAATATT
Found at i:14614407 original size:6 final size:6
Alignment explanation
Indices: 14614398--14614424 Score: 54
Period size: 6 Copynumber: 4.5 Consensus size: 6
14614388 TCCATTTCCA
14614398 TTTTCG TTTTCG TTTTCG TTTTCG TTT
1 TTTTCG TTTTCG TTTTCG TTTTCG TTT
14614425 CTATTTTTGC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 21 1.00
ACGTcount: A:0.00, C:0.15, G:0.15, T:0.70
Consensus pattern (6 bp):
TTTTCG
Found at i:14618590 original size:6 final size:6
Alignment explanation
Indices: 14618579--14618615 Score: 65
Period size: 6 Copynumber: 6.0 Consensus size: 6
14618569 AGCGGAAATG
14618579 GGATTA GGATTA GGATTA GGATTA GGATTA TGGATTA
1 GGATTA GGATTA GGATTA GGATTA GGATTA -GGATTA
14618616 AGGGTAATAA
Statistics
Matches: 30, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
6 24 0.80
7 6 0.20
ACGTcount: A:0.32, C:0.00, G:0.32, T:0.35
Consensus pattern (6 bp):
GGATTA
Found at i:14621848 original size:14 final size:12
Alignment explanation
Indices: 14621826--14621867 Score: 50
Period size: 13 Copynumber: 3.4 Consensus size: 12
14621816 TTCTCAACTC
14621826 ATAATTCTCATAA
1 ATAATTCTCA-AA
14621839 ATAATGTCTCAAA
1 ATAAT-TCTCAAA
*
14621852 ATAATTCAC-AA
1 ATAATTCTCAAA
14621863 ATAAT
1 ATAAT
14621868 CATGTATTGG
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
11 7 0.26
12 3 0.11
13 12 0.44
14 5 0.19
ACGTcount: A:0.50, C:0.14, G:0.02, T:0.33
Consensus pattern (12 bp):
ATAATTCTCAAA
Found at i:14623561 original size:178 final size:178
Alignment explanation
Indices: 14623357--14623721 Score: 730
Period size: 178 Copynumber: 2.1 Consensus size: 178
14623347 TCAAGAGATA
14623357 ATAAATAAAATAAGTCTAAGAAAATAAAAATAAAGCAACTAAAAACAAAATTAAAGATAAAAAGA
1 ATAAATAAAATAAGTCTAAGAAAATAAAAATAAAGCAACTAAAAACAAAATTAAAGATAAAAAGA
14623422 AAAGGAAAAAGAAAAGAAAAGAAATAAATTCAATGATACCAATAAAATTAAAGGTAATTGTAAGA
66 AAAGGAAAAAGAAAAGAAAAGAAATAAATTCAATGATACCAATAAAATTAAAGGTAATTGTAAGA
14623487 ATAATAGTAAAAAAAATACTAGAAATAATAGAAATATAACTAAATAGC
131 ATAATAGTAAAAAAAATACTAGAAATAATAGAAATATAACTAAATAGC
14623535 ATAAATAAAATAAGTCTAAGAAAATAAAAATAAAGCAACTAAAAACAAAATTAAAGATAAAAAGA
1 ATAAATAAAATAAGTCTAAGAAAATAAAAATAAAGCAACTAAAAACAAAATTAAAGATAAAAAGA
14623600 AAAGGAAAAAGAAAAGAAAAGAAATAAATTCAATGATACCAATAAAATTAAAGGTAATTGTAAGA
66 AAAGGAAAAAGAAAAGAAAAGAAATAAATTCAATGATACCAATAAAATTAAAGGTAATTGTAAGA
14623665 ATAATAGTAAAAAAAATACTAGAAATAATAGAAATATAACTAAATAGC
131 ATAATAGTAAAAAAAATACTAGAAATAATAGAAATATAACTAAATAGC
14623713 ATAAATAAA
1 ATAAATAAA
14623722 TTAAAATTTA
Statistics
Matches: 187, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
178 187 1.00
ACGTcount: A:0.65, C:0.05, G:0.10, T:0.19
Consensus pattern (178 bp):
ATAAATAAAATAAGTCTAAGAAAATAAAAATAAAGCAACTAAAAACAAAATTAAAGATAAAAAGA
AAAGGAAAAAGAAAAGAAAAGAAATAAATTCAATGATACCAATAAAATTAAAGGTAATTGTAAGA
ATAATAGTAAAAAAAATACTAGAAATAATAGAAATATAACTAAATAGC
Found at i:14624124 original size:30 final size:30
Alignment explanation
Indices: 14624090--14624167 Score: 122
Period size: 30 Copynumber: 2.6 Consensus size: 30
14624080 ACGGCCTCGG
14624090 ACACGCCCGTGTGTCCAGGCTGTGTGGCAC
1 ACACGCCCGTGTGTCCAGGCTGTGTGGCAC
* *
14624120 ACACGCCCGTGTGTCTAGACTGTGTGGCAC
1 ACACGCCCGTGTGTCCAGGCTGTGTGGCAC
*
14624150 ACACGGCCGTGTG-CCAGG
1 ACACGCCCGTGTGTCCAGG
14624168 TCGTGTATGT
Statistics
Matches: 43, Mismatches: 5, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
29 3 0.07
30 40 0.93
ACGTcount: A:0.15, C:0.32, G:0.33, T:0.19
Consensus pattern (30 bp):
ACACGCCCGTGTGTCCAGGCTGTGTGGCAC
Found at i:14630307 original size:22 final size:22
Alignment explanation
Indices: 14630282--14630343 Score: 58
Period size: 22 Copynumber: 2.9 Consensus size: 22
14630272 AGAGGGGTGC
*
14630282 AAGAAACGGAA-ACTAAGAAGAA
1 AAGAAA-GGAAGAATAAGAAGAA
*
14630304 AAGATAGGAAGAATAAGAAGAA
1 AAGAAAGGAAGAATAAGAAGAA
* *
14630326 GAGAAAAG-AGAA-AAGAAG
1 AAGAAAGGAAGAATAAGAAG
14630344 GGGGAAGTGA
Statistics
Matches: 34, Mismatches: 5, Indels: 4
0.79 0.12 0.09
Matches are distributed among these distances:
20 6 0.18
21 8 0.24
22 20 0.59
ACGTcount: A:0.65, C:0.03, G:0.27, T:0.05
Consensus pattern (22 bp):
AAGAAAGGAAGAATAAGAAGAA
Found at i:14637620 original size:24 final size:25
Alignment explanation
Indices: 14637584--14637632 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
14637574 ACAAATTAAA
* *
14637584 ATAATAATTTAATATATTTTAAAACC
1 ATAATAA-TTAATAAATTTAAAAACC
14637610 ATAATAA-TAATAAATTTAAAAAC
1 ATAATAATTAATAAATTTAAAAAC
14637633 ACCCTCAAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 14 0.67
26 7 0.33
ACGTcount: A:0.57, C:0.06, G:0.00, T:0.37
Consensus pattern (25 bp):
ATAATAATTAATAAATTTAAAAACC
Found at i:14638088 original size:2 final size:2
Alignment explanation
Indices: 14638083--14638119 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
14638073 TTCAAAAAAC
14638083 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
14638120 CTCTCGACCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.49, T:0.00
Consensus pattern (2 bp):
AG
Found at i:14639137 original size:50 final size:50
Alignment explanation
Indices: 14639071--14639311 Score: 261
Period size: 50 Copynumber: 4.7 Consensus size: 50
14639061 TCTTGCACTA
* * **
14639071 CCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTCATATAGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGGTG
* *
14639121 CCCATGCCATGTCCCAGACATGGTCTTACGA-GGGACCTCTCATCTCA-GTG
1 CCAATGCCATGTCCCAGACATGGTCTTAC-ATGGGACCTCTCATAT-AGGTG
* * *
14639171 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTTCATCTTGGTG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGGTG
* * * **
14639221 CCAACGTCATGTCCCAGACATGGTCTTAAATGGGACCTCTCATAATCTAAATTATG
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCAT-A--T--A-GGTG
*
14639277 CCAATGCCATGTCCCAAACATGGTCTTACATGGGA
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGA
14639312 TCTCATCCTC
Statistics
Matches: 160, Mismatches: 21, Indels: 14
0.82 0.11 0.07
Matches are distributed among these distances:
49 1 0.01
50 123 0.77
51 2 0.01
53 1 0.01
56 33 0.21
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.27
Consensus pattern (50 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATAGGTG
Found at i:14639186 original size:100 final size:103
Alignment explanation
Indices: 14639071--14639311 Score: 294
Period size: 100 Copynumber: 2.3 Consensus size: 103
14639061 TCTTGCACTA
* * * * *
14639071 CCAATGCCATATCCCAGATATGGTCTTACATGGGA-GTTCTCATATAGGTGCCCATGCCATGTCC
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTT-TCATATAGGTGCCAACGCCATGTCC
* * *
14639135 CAGACATGGTCTTACGA-GGGACCTCTC-ATCT-CA-GTG
65 CAGACATGGTCTTA-AATGGGACCTCTCAATCTAAATATG
* * *
14639171 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTTCATCTTGGTGCCAACGTCATGTCCC
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTTCATATAGGTGCCAACGCCATGTCCC
14639236 AGACATGGTCTTAAATGGGACCTCTCATAATCTAAATTATG
66 AGACATGGTCTTAAATGGGACCTCTC--AATCTAAA-TATG
*
14639277 CCAATGCCATGTCCCAAACATGGTCTTACATGGGA
1 CCAATGCCATGTCCCAGACATGGTCTTACATGGGA
14639312 TCTCATCCTC
Statistics
Matches: 121, Mismatches: 12, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
99 1 0.01
100 77 0.64
101 2 0.02
103 4 0.03
104 1 0.01
106 36 0.30
ACGTcount: A:0.25, C:0.27, G:0.20, T:0.27
Consensus pattern (103 bp):
CCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTTTCATATAGGTGCCAACGCCATGTCCC
AGACATGGTCTTAAATGGGACCTCTCAATCTAAATATG
Found at i:14640584 original size:19 final size:17
Alignment explanation
Indices: 14640550--14640584 Score: 52
Period size: 19 Copynumber: 1.9 Consensus size: 17
14640540 CTAAAATAGT
14640550 AACAAAATTAACAATAA
1 AACAAAATTAACAATAA
14640567 AACAACAATTATACAATA
1 AACAA-AATTA-ACAATA
14640585 TGTAAACAAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 5 0.31
19 6 0.38
ACGTcount: A:0.66, C:0.14, G:0.00, T:0.20
Consensus pattern (17 bp):
AACAAAATTAACAATAA
Found at i:14640618 original size:22 final size:22
Alignment explanation
Indices: 14640593--14640635 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
14640583 TATGTAAACA
14640593 ATAATAATAAAATAGTAGCAAC
1 ATAATAATAAAATAGTAGCAAC
* * *
14640615 ATAATAGTGAAATTGTAGCAA
1 ATAATAATAAAATAGTAGCAA
14640636 AATAGTAAAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.53, C:0.07, G:0.14, T:0.26
Consensus pattern (22 bp):
ATAATAATAAAATAGTAGCAAC
Found at i:14641797 original size:74 final size:74
Alignment explanation
Indices: 14641676--14641820 Score: 263
Period size: 74 Copynumber: 2.0 Consensus size: 74
14641666 TATGATACTT
* *
14641676 GTATTAACTTTTGTCTAGTCTAGTATTTGTGTCTGACAAAAGTTATACATTTTGGTACCTGAAGA
1 GTATTAACTTTTGTCTAGTATAGTACTTGTGTCTGACAAAAGTTATACATTTTGGTACCTGAAGA
14641741 TAATAACTC
66 TAATAACTC
*
14641750 GTATTAACTTTTGTCTAGTATAGTACTTGTGTCTGACAAAAGTTATACATTTTGGTAGCTGAAGA
1 GTATTAACTTTTGTCTAGTATAGTACTTGTGTCTGACAAAAGTTATACATTTTGGTACCTGAAGA
14641815 TAATAA
66 TAATAA
14641821 TGTTTAATTT
Statistics
Matches: 68, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
74 68 1.00
ACGTcount: A:0.31, C:0.12, G:0.17, T:0.40
Consensus pattern (74 bp):
GTATTAACTTTTGTCTAGTATAGTACTTGTGTCTGACAAAAGTTATACATTTTGGTACCTGAAGA
TAATAACTC
Found at i:14646064 original size:43 final size:42
Alignment explanation
Indices: 14645977--14646075 Score: 119
Period size: 43 Copynumber: 2.3 Consensus size: 42
14645967 GCTCTCGGTA
14645977 TCGCACACTTAGTGCCCGTTAATCAACATCTCGATTTTAATT
1 TCGCACACTTAGTGCCCGTTAATCAACATCTCGATTTTAATT
* * * * *
14646019 TCGCACACTCAGTGCCCTTTTATTCAACCTCATC-ATTTTAGTT
1 TCGCACACTTAGTGCCC-GTTAATCAACATC-TCGATTTTAATT
*
14646062 TCGTACACTTAGTG
1 TCGCACACTTAGTG
14646076 ACGTTTAAAT
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
42 16 0.33
43 30 0.62
44 2 0.04
ACGTcount: A:0.23, C:0.27, G:0.12, T:0.37
Consensus pattern (42 bp):
TCGCACACTTAGTGCCCGTTAATCAACATCTCGATTTTAATT
Found at i:14648516 original size:3 final size:3
Alignment explanation
Indices: 14648508--14648532 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
14648498 AAGAACTTAT
14648508 TCA TCA TCA TCA TCA TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA T
14648533 TTCAATTATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.32, C:0.32, G:0.00, T:0.36
Consensus pattern (3 bp):
TCA
Found at i:14650905 original size:61 final size:60
Alignment explanation
Indices: 14650828--14650952 Score: 155
Period size: 61 Copynumber: 2.1 Consensus size: 60
14650818 TCTTAAATAT
* ** * * *
14650828 TAAAAGTTCAACAAATTTAGCCCTC-AATGTTTACAAAATTTGTCATTTTAGTTCTAACTC
1 TAAAAGTTCAACAAATTT-GCCCCCTAACATTTACAAAATTTGTCAATCTAGTCCTAACTC
14650888 TAAAAGATTCTAA-AAATTTGCCCCCTAACATTTACAAAATTTGTCAATCTAGTCCTAACTC
1 TAAAAG-TTC-AACAAATTTGCCCCCTAACATTTACAAAATTTGTCAATCTAGTCCTAACTC
14650949 TAAA
1 TAAA
14650953 GCTTACTATA
Statistics
Matches: 56, Mismatches: 6, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
60 11 0.20
61 43 0.77
62 2 0.04
ACGTcount: A:0.38, C:0.20, G:0.07, T:0.35
Consensus pattern (60 bp):
TAAAAGTTCAACAAATTTGCCCCCTAACATTTACAAAATTTGTCAATCTAGTCCTAACTC
Found at i:14651438 original size:60 final size:60
Alignment explanation
Indices: 14651326--14651445 Score: 136
Period size: 60 Copynumber: 2.0 Consensus size: 60
14651316 TATTTTTAAA
* * * * **
14651326 TTTTTAGACTTAAGAATAAATTGATAGATTTTGTAAATGTTGAGGGACAAATTTATTGAT
1 TTTTTAGAATTAAGAATAAAATGACAAATTTTGTAAACATTGAGGGACAAATTTATTGAT
* *
14651386 TTTTTAGAATT-AGAACTAAAATGACAAATTTTGTAAACATTTAGGG-CTAAATTTGTTGAT
1 TTTTTAGAATTAAGAA-TAAAATGACAAATTTTGTAAACATTGAGGGAC-AAATTTATTGAT
14651446 GTTGGGATAA
Statistics
Matches: 50, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
59 5 0.10
60 45 0.90
ACGTcount: A:0.38, C:0.05, G:0.17, T:0.41
Consensus pattern (60 bp):
TTTTTAGAATTAAGAATAAAATGACAAATTTTGTAAACATTGAGGGACAAATTTATTGAT
Found at i:14654356 original size:51 final size:52
Alignment explanation
Indices: 14654282--14654577 Score: 237
Period size: 51 Copynumber: 5.6 Consensus size: 52
14654272 TACCAGTATT
* * *
14654282 TAAAAAAA-TTTAGGTGTTGGGACATTAATGGCCAACA-CTCCTTTATCT-A
1 TAAAAAAATTTTGGGTGCTGGGACATTAATGGCCAACACCCCCTTTATCTGA
* * * * * *
14654331 GTAAAAAAATTTTGGGTGCTAGGACATTGATGACCGACAACCCTTTTAT-TGGA
1 -TAAAAAAATTTTGGGTGCTGGGACATTAATGGCCAACACCCCCTTTATCT-GA
* * * * * *
14654384 TTTTAAAAAAATTTAGGGTGTTGGAATACTAATGGCCAACATCCCCTTTATCTGA
1 ---TAAAAAAATTTTGGGTGCTGGGACATTAATGGCCAACACCCCCTTTATCTGA
* * *
14654439 TAAAAAGAATTTTGGAGTGTTGGGA-AGCTGATGGCCAACACCCCCTTTATCTGA
1 TAAAAA-AATTTTGG-GTGCTGGGACA-TTAATGGCCAACACCCCCTTTATCTGA
* * * * *
14654493 TAAAAAAA-TTGGGGTGCTGGGACACTAA-CGACAGACACCCCCTTTATTTGA
1 TAAAAAAATTTTGGGTGCTGGGACATTAATGGCCA-ACACCCCCTTTATCTGA
*
14654544 TAAAAAAATTTTGGGGTGCTGGGACATTGATGGC
1 TAAAAAAATTTT-GGGTGCTGGGACATTAATGGC
14654578 TGGCACCCCA
Statistics
Matches: 196, Mismatches: 35, Indels: 26
0.76 0.14 0.10
Matches are distributed among these distances:
50 11 0.06
51 59 0.30
52 20 0.10
53 26 0.13
54 40 0.20
55 39 0.20
56 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.22, T:0.30
Consensus pattern (52 bp):
TAAAAAAATTTTGGGTGCTGGGACATTAATGGCCAACACCCCCTTTATCTGA
Found at i:14654585 original size:53 final size:53
Alignment explanation
Indices: 14654321--14654586 Score: 199
Period size: 54 Copynumber: 5.0 Consensus size: 53
14654311 GGCCAACACT
* * * * *
14654321 CCTTTATCT-AGTAAAAAAATTTT-GGGTGCTAGGACATTGATGACCGACAACC
1 CCTTTATCTGA-TAAAAAAATTTTGGGGTGCTGGGACACTGATGGCAGACACCC
* * * * * * *
14654373 CTTTTAT-TGGATTTTAAAAAAA-TTTAGGGTGTTGGAATACTAATGGCCA-ACATCC
1 CCTTTATCT-GA---TAAAAAAATTTTGGGGTGCTGGGACACTGATGG-CAGACACCC
* *
14654428 CCTTTATCTGATAAAAAGAATTTTGGAGTGTTGGGA-AGCTGATGGCCA-ACACCC
1 CCTTTATCTGATAAAAA-AATTTTGGGGTGCTGGGACA-CTGATGG-CAGACACCC
* * *
14654482 CCTTTATCTGATAAAAAAA--TTGGGGTGCTGGGACACTAACGACAGACACCC
1 CCTTTATCTGATAAAAAAATTTTGGGGTGCTGGGACACTGATGGCAGACACCC
* * * *
14654533 CCTTTATTTGATAAAAAAATTTTGGGGTGCTGGGACATTGATGGCTGGCACCC
1 CCTTTATCTGATAAAAAAATTTTGGGGTGCTGGGACACTGATGGCAGACACCC
14654586 C
1 C
14654587 AGTAGTCTAT
Statistics
Matches: 171, Mismatches: 29, Indels: 27
0.75 0.13 0.12
Matches are distributed among these distances:
50 2 0.01
51 41 0.24
52 13 0.08
53 33 0.19
54 46 0.27
55 34 0.20
56 2 0.01
ACGTcount: A:0.30, C:0.18, G:0.22, T:0.29
Consensus pattern (53 bp):
CCTTTATCTGATAAAAAAATTTTGGGGTGCTGGGACACTGATGGCAGACACCC
Found at i:14657025 original size:127 final size:127
Alignment explanation
Indices: 14656796--14657050 Score: 449
Period size: 127 Copynumber: 2.0 Consensus size: 127
14656786 GCATCTGATA
14656796 TAATGTCCATGATTGCAACAAAAGGCAGCAACCGCTCATGTCCTTCATATTTGGCTTTGTCGCTT
1 TAATGTCCATGATTGCAACAAAAGGCAGCAACCGCTCATGTCCTTCATATTTGGCTTTGTCGCTT
*
14656861 GACAAAGCTCGTGATATAGGCATACCAAAAATCCAGAGCCCCAATTGTAAGTCCTGACATGG
66 GACAAAGCTCGTGATATAGGCATACCAAAAACCCAGAGCCCCAATTGTAAGTCCTGACATGG
* *
14656923 TAATGTCCATGATTGCAGCAAAAGGCAGCAACCGCTCATGTCCTTCATATTTGGCTTTGTCTCTT
1 TAATGTCCATGATTGCAACAAAAGGCAGCAACCGCTCATGTCCTTCATATTTGGCTTTGTCGCTT
* *
14656988 GACAAAGTTCGTGATATAGGCATACC-AAAACCGCAGAGCCCCAATTGTAAGTCTTGACATGG
66 GACAAAGCTCGTGATATAGGCATACCAAAAACC-CAGAGCCCCAATTGTAAGTCCTGACATGG
14657050 T
1 T
14657051 TCAGATCTTT
Statistics
Matches: 122, Mismatches: 5, Indels: 2
0.95 0.04 0.02
Matches are distributed among these distances:
126 5 0.04
127 117 0.96
ACGTcount: A:0.29, C:0.24, G:0.20, T:0.27
Consensus pattern (127 bp):
TAATGTCCATGATTGCAACAAAAGGCAGCAACCGCTCATGTCCTTCATATTTGGCTTTGTCGCTT
GACAAAGCTCGTGATATAGGCATACCAAAAACCCAGAGCCCCAATTGTAAGTCCTGACATGG
Found at i:14658192 original size:32 final size:33
Alignment explanation
Indices: 14658153--14658242 Score: 87
Period size: 36 Copynumber: 2.7 Consensus size: 33
14658143 TTAGAGGTTT
14658153 TTTCTTTCACTGTAGGGTTTTTTC-TTTCTTTC
1 TTTCTTTCACTGTAGGGTTTTTTCTTTTCTTTC
* *
14658185 TTTCTTTCAC--CAGGTTTTTTAAAATTCTTTTCTTTC
1 TTTCTTTCACTGTAGG-GTTTT----TTCTTTTCTTTC
*
14658221 TTTCTTTCACTGTAGGGGTTTT
1 TTTCTTTCACTGTAGGGTTTTT
14658243 AATTTTTTAG
Statistics
Matches: 45, Mismatches: 5, Indels: 15
0.69 0.08 0.23
Matches are distributed among these distances:
30 3 0.07
31 4 0.09
32 10 0.22
33 1 0.02
35 3 0.07
36 18 0.40
37 3 0.07
38 3 0.07
ACGTcount: A:0.11, C:0.18, G:0.12, T:0.59
Consensus pattern (33 bp):
TTTCTTTCACTGTAGGGTTTTTTCTTTTCTTTC
Found at i:14665312 original size:39 final size:40
Alignment explanation
Indices: 14665233--14665313 Score: 137
Period size: 40 Copynumber: 2.0 Consensus size: 40
14665223 CGAAGCCTTG
* *
14665233 ATATGTGGGTGAGAAGTCATTAAAAAAAAAAACTATGGTC
1 ATATGTGGGCGAGAAGTCATTAAAAAAAAAAACTACGGTC
14665273 ATATGTGGGCGAGAAGTCATT-AAAAAAAAAACTACGGTC
1 ATATGTGGGCGAGAAGTCATTAAAAAAAAAAACTACGGTC
14665312 AT
1 AT
14665314 TTAAAATTCC
Statistics
Matches: 39, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
39 19 0.49
40 20 0.51
ACGTcount: A:0.44, C:0.10, G:0.22, T:0.23
Consensus pattern (40 bp):
ATATGTGGGCGAGAAGTCATTAAAAAAAAAAACTACGGTC
Found at i:14666387 original size:16 final size:17
Alignment explanation
Indices: 14666361--14666394 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 17
14666351 ATTAAATTAA
14666361 TTTGAATTAAATAATTT
1 TTTGAATTAAATAATTT
*
14666378 TTTG-ATTAAATTATTT
1 TTTGAATTAAATAATTT
14666394 T
1 T
14666395 CTCAGCCCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
16 12 0.75
17 4 0.25
ACGTcount: A:0.35, C:0.00, G:0.06, T:0.59
Consensus pattern (17 bp):
TTTGAATTAAATAATTT
Found at i:14666647 original size:38 final size:38
Alignment explanation
Indices: 14666596--14666672 Score: 136
Period size: 38 Copynumber: 2.0 Consensus size: 38
14666586 TCATACTTAG
*
14666596 TGAGAAAATCACATTCATTTCTGAATGTGACCCATTTA
1 TGAGAAAACCACATTCATTTCTGAATGTGACCCATTTA
*
14666634 TGAGAAAACCACATTCATTTCTGAATGTGGCCCATTTA
1 TGAGAAAACCACATTCATTTCTGAATGTGACCCATTTA
14666672 T
1 T
14666673 CTAACTTTAT
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.32, C:0.19, G:0.14, T:0.34
Consensus pattern (38 bp):
TGAGAAAACCACATTCATTTCTGAATGTGACCCATTTA
Found at i:14668367 original size:23 final size:23
Alignment explanation
Indices: 14668341--14668406 Score: 105
Period size: 23 Copynumber: 2.9 Consensus size: 23
14668331 ACAGACATCG
*
14668341 ATGCATAGCAGATACAGATTCAA
1 ATGCATAACAGATACAGATTCAA
* *
14668364 ATGCATAACAGTTATAGATTCAA
1 ATGCATAACAGATACAGATTCAA
14668387 ATGCATAACAGATACAGATT
1 ATGCATAACAGATACAGATT
14668407 TAGATCCTAT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
23 38 1.00
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.26
Consensus pattern (23 bp):
ATGCATAACAGATACAGATTCAA
Found at i:14669217 original size:17 final size:17
Alignment explanation
Indices: 14669191--14669231 Score: 55
Period size: 17 Copynumber: 2.4 Consensus size: 17
14669181 GAAAAATATG
14669191 TATGACTTTGAAATTGAA
1 TATGA-TTTGAAATTGAA
*
14669209 TATGATTTGATATTGAA
1 TATGATTTGAAATTGAA
*
14669226 TTTGAT
1 TATGAT
14669232 ACTGTATTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 16 0.76
18 5 0.24
ACGTcount: A:0.34, C:0.02, G:0.17, T:0.46
Consensus pattern (17 bp):
TATGATTTGAAATTGAA
Found at i:14669703 original size:42 final size:41
Alignment explanation
Indices: 14669656--14669777 Score: 127
Period size: 42 Copynumber: 2.9 Consensus size: 41
14669646 TACTTCGGTA
*
14669656 TATTCGATTATGCATTTATGTGCTAGTATATTTTCTTCAGCT
1 TATTCGATAATGCATTTATGTGCTAGTATA-TTTCTTCAGCT
* * * *
14669698 TATTCGATAATGCACTTACGTGCTAGTATGATTACTTCAGTT
1 TATTCGATAATGCATTTATGTGCTAGTAT-ATTTCTTCAGCT
* * * *
14669740 TATTCGATGATGCACTATGTGTGCTAGTGTAATTTCTT
1 TATTCGATAATGCA-TTTATGTGCTAGTAT-ATTTCTT
14669778 TGGTTCATCC
Statistics
Matches: 65, Mismatches: 13, Indels: 3
0.80 0.16 0.04
Matches are distributed among these distances:
42 48 0.74
43 17 0.26
ACGTcount: A:0.23, C:0.15, G:0.17, T:0.45
Consensus pattern (41 bp):
TATTCGATAATGCATTTATGTGCTAGTATATTTCTTCAGCT
Found at i:14675525 original size:31 final size:31
Alignment explanation
Indices: 14675479--14675549 Score: 126
Period size: 31 Copynumber: 2.3 Consensus size: 31
14675469 TAATATCATC
*
14675479 ATCCATGT-TATACATAATAATCCATCCAAA
1 ATCCATTTATATACATAATAATCCATCCAAA
14675509 ATCCATTTATATACATAATAATCCATCCAAA
1 ATCCATTTATATACATAATAATCCATCCAAA
14675540 ATCCATTTAT
1 ATCCATTTAT
14675550 CTTACTTTTT
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
30 7 0.18
31 32 0.82
ACGTcount: A:0.42, C:0.23, G:0.01, T:0.34
Consensus pattern (31 bp):
ATCCATTTATATACATAATAATCCATCCAAA
Found at i:14682834 original size:31 final size:30
Alignment explanation
Indices: 14682766--14682839 Score: 87
Period size: 31 Copynumber: 2.4 Consensus size: 30
14682756 AAAACCCAGG
* *
14682766 ATAGTTGGGTGACACAAAAGAAATTTACTA
1 ATAGTTGGGTGACACAAAAGAAAATGACTA
* *
14682796 ATAGTTGGGTGACCCAAAAATGAAAATGAC-C
1 ATAGTTGGGTGACAC-AAAA-GAAAATGACTA
14682827 ATAGTTGGGTGAC
1 ATAGTTGGGTGAC
14682840 TACTAATATA
Statistics
Matches: 38, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
30 14 0.37
31 17 0.45
32 7 0.18
ACGTcount: A:0.39, C:0.12, G:0.24, T:0.24
Consensus pattern (30 bp):
ATAGTTGGGTGACACAAAAGAAAATGACTA
Found at i:14687327 original size:22 final size:22
Alignment explanation
Indices: 14687297--14687338 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
14687287 TATGTAAATA
*
14687297 TAAATTATTTAAAATAAAAACT
1 TAAAATATTTAAAATAAAAACT
**
14687319 TAAAATATTTATGATAAAAA
1 TAAAATATTTAAAATAAAAA
14687339 AAAAAAAGAG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 17 1.00
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.36
Consensus pattern (22 bp):
TAAAATATTTAAAATAAAAACT
Found at i:14692267 original size:35 final size:35
Alignment explanation
Indices: 14692228--14692298 Score: 142
Period size: 35 Copynumber: 2.0 Consensus size: 35
14692218 ATCTCTAGCC
14692228 AGGTCATTTTCTTAATTGTTATGGAAGGCATTGAG
1 AGGTCATTTTCTTAATTGTTATGGAAGGCATTGAG
14692263 AGGTCATTTTCTTAATTGTTATGGAAGGCATTGAG
1 AGGTCATTTTCTTAATTGTTATGGAAGGCATTGAG
14692298 A
1 A
14692299 AAACTAAAAG
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.27, C:0.08, G:0.25, T:0.39
Consensus pattern (35 bp):
AGGTCATTTTCTTAATTGTTATGGAAGGCATTGAG
Found at i:14700889 original size:16 final size:16
Alignment explanation
Indices: 14700857--14700901 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
14700847 TGCAAGACTG
* *
14700857 AAGC-AAGAAGAATCA
1 AAGCAAAGAAAAAGCA
14700872 AAGCAAAGAAAAAGCA
1 AAGCAAAGAAAAAGCA
14700888 AAGCAAAGCAAAAA
1 AAGCAAAG-AAAAA
14700902 TAAACAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
15 4 0.15
16 17 0.65
17 5 0.19
ACGTcount: A:0.67, C:0.13, G:0.18, T:0.02
Consensus pattern (16 bp):
AAGCAAAGAAAAAGCA
Found at i:14705445 original size:16 final size:16
Alignment explanation
Indices: 14705413--14705457 Score: 56
Period size: 16 Copynumber: 2.8 Consensus size: 16
14705403 TGCAAGACTG
* *
14705413 AAGC-AAGAAGAATCA
1 AAGCAAAGAAAAAGCA
14705428 AAGCAAAGAAAAAGCA
1 AAGCAAAGAAAAAGCA
14705444 AAGCAAAGCAAAAA
1 AAGCAAAG-AAAAA
14705458 TAAACAAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
15 4 0.15
16 17 0.65
17 5 0.19
ACGTcount: A:0.67, C:0.13, G:0.18, T:0.02
Consensus pattern (16 bp):
AAGCAAAGAAAAAGCA
Found at i:14706789 original size:3 final size:3
Alignment explanation
Indices: 14706781--14706808 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
14706771 GGCCAAAAAT
14706781 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA A
14706809 GGGTTAATAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
ATA
Found at i:14711312 original size:87 final size:86
Alignment explanation
Indices: 14711182--14711341 Score: 266
Period size: 87 Copynumber: 1.8 Consensus size: 86
14711172 TTATGTGAAA
*
14711182 AAACGCCGCTAAAGATCATGGCCTTTAGCGGCGCTTTTATCACAAACACCGCTAAAGATCACGAC
1 AAACGCCGCTAAAGATCATGGCCTTTAGCGGCGCTTTTATCACAAACACCGCTAAAGAACACGAC
14711247 CTTTAGCGGTGCTTTTGTCAT
66 CTTTAGCGGTGCTTTTGTCAT
* * * *
14711268 AAACGCCGCTAAAGGTCATGGCCTTTTAGCGGTGCTTTTATCACAAACGCCGCTAAAGAACATGA
1 AAACGCCGCTAAAGATCATGGCC-TTTAGCGGCGCTTTTATCACAAACACCGCTAAAGAACACGA
14711333 CCTTTAGCG
65 CCTTTAGCG
14711342 ACGCTTTTTA
Statistics
Matches: 68, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
86 22 0.32
87 46 0.68
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.26
Consensus pattern (86 bp):
AAACGCCGCTAAAGATCATGGCCTTTAGCGGCGCTTTTATCACAAACACCGCTAAAGAACACGAC
CTTTAGCGGTGCTTTTGTCAT
Found at i:14711372 original size:44 final size:43
Alignment explanation
Indices: 14711182--14711410 Score: 253
Period size: 43 Copynumber: 5.3 Consensus size: 43
14711172 TTATGTGAAA
*
14711182 AAACGCCGCTAAAGATCATGGCCTTTAGCGGCGCTTTTATCAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTATCAC
* * * * *
14711225 AAACACCGCTAAAGATCACGACCTTTAGCGGTGCTTTTGTCAT
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTATCAC
* * *
14711268 AAACGCCGCTAAAGGTCATGGCCTTTTAGCGGTGCTTTTATCAC
1 AAACGCCGCTAAAGATCATGACC-TTTAGCGGCGCTTTTATCAC
* *
14711312 AAACGCCGCTAAAGAACATGACCTTTAGCGACGCTTTTTATCAC
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGC-TTTTATCAC
* * * * * * ** *
14711356 AAATGCCGCTATAGAACA-AACCTTTAGCGACGCTTCTCGCAA
1 AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTATCAC
14711398 AAACGCCGCTAAA
1 AAACGCCGCTAAA
14711411 AACATAAGCT
Statistics
Matches: 158, Mismatches: 26, Indels: 5
0.84 0.14 0.03
Matches are distributed among these distances:
42 16 0.10
43 79 0.50
44 63 0.40
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (43 bp):
AAACGCCGCTAAAGATCATGACCTTTAGCGGCGCTTTTATCAC
Found at i:14711380 original size:87 final size:86
Alignment explanation
Indices: 14711182--14711415 Score: 238
Period size: 87 Copynumber: 2.7 Consensus size: 86
14711172 TTATGTGAAA
* ** * * *
14711182 AAACGCCGCTAAAGATCATGGCCTTTAGCGGCGCTTTTATCACAAACACCGCTAAAGATCACGAC
1 AAACGCCGCTAAAGAACATAACCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAGAACATGAC
** * *
14711247 CTTTAGCGGTGCTTTTGTCAT
66 CTTTAGCGACGCTTTTATCAC
** ** *
14711268 AAACGCCGCTAAAGGTCATGGCCTTTTAGCGGTGCTTTTATCACAAACGCCGCTAAAGAACATGA
1 AAACGCCGCTAAAGAACATAACC-TTTAGCGGCGCTTTTATCACAAACGCCGCTAAAGAACATGA
14711333 CCTTTAGCGACGCTTTTTATCAC
65 CCTTTAGCGACGC-TTTTATCAC
* * * * ** *
14711356 AAATGCCGCTATAGAACA-AACCTTTAGCGACGCTTCTCGCAAAAACGCCGCTAAA-AACAT
1 AAACGCCGCTAAAGAACATAACCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAGAACAT
14711416 AAGCTTTAAA
Statistics
Matches: 125, Mismatches: 21, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
85 5 0.04
86 49 0.39
87 50 0.40
88 21 0.17
ACGTcount: A:0.30, C:0.27, G:0.18, T:0.25
Consensus pattern (86 bp):
AAACGCCGCTAAAGAACATAACCTTTAGCGGCGCTTTTATCACAAACGCCGCTAAAGAACATGAC
CTTTAGCGACGCTTTTATCAC
Found at i:14711793 original size:43 final size:43
Alignment explanation
Indices: 14711727--14711817 Score: 112
Period size: 43 Copynumber: 2.1 Consensus size: 43
14711717 CACATTGCAA
* * * **
14711727 GGTAATAAAAAATGCAATGCATTTTCTTAATCAATTAAATCTT
1 GGTAATAAAAAATACAATACATTTACTTAATCAAGGAAATCTT
* *
14711770 GGTAATAAAAGATATAATACATTTACTTAATCAAGGAAATCTT
1 GGTAATAAAAAATACAATACATTTACTTAATCAAGGAAATCTT
14711813 -GTAAT
1 GGTAAT
14711818 GAAGTCAAAG
Statistics
Matches: 41, Mismatches: 7, Indels: 1
0.84 0.14 0.02
Matches are distributed among these distances:
42 5 0.12
43 36 0.88
ACGTcount: A:0.44, C:0.10, G:0.11, T:0.35
Consensus pattern (43 bp):
GGTAATAAAAAATACAATACATTTACTTAATCAAGGAAATCTT
Found at i:14720041 original size:7 final size:7
Alignment explanation
Indices: 14720029--14720154 Score: 51
Period size: 7 Copynumber: 17.7 Consensus size: 7
14720019 ACTAGTTAAT
14720029 CTAAACC
1 CTAAACC
14720036 CTAAACC
1 CTAAACC
* *
14720043 ATAAA-T
1 CTAAACC
14720049 CTAAACC
1 CTAAACC
14720056 CTAAAACC
1 CT-AAACC
*
14720064 ATAAACC
1 CTAAACC
* *
14720071 CTTAACA
1 CTAAACC
14720078 C-ATAACC
1 CTA-AACC
14720085 TCTAAACC
1 -CTAAACC
*
14720093 TTAAACC
1 CTAAACC
* *
14720100 C-CATCC
1 CTAAACC
*
14720106 TTTAAACC
1 -CTAAACC
*
14720114 ATAAACC
1 CTAAACC
* *
14720121 ATAATCC
1 CTAAACC
14720128 CTAAACC
1 CTAAACC
*
14720135 CATAATCC
1 C-TAAACC
*
14720143 ATAAACC
1 CTAAACC
*
14720150 TTAAA
1 CTAAA
14720155 ATGGTAACAC
Statistics
Matches: 86, Mismatches: 25, Indels: 16
0.68 0.20 0.13
Matches are distributed among these distances:
6 7 0.08
7 59 0.69
8 19 0.22
9 1 0.01
ACGTcount: A:0.45, C:0.33, G:0.00, T:0.21
Consensus pattern (7 bp):
CTAAACC
Found at i:14720051 original size:20 final size:21
Alignment explanation
Indices: 14720026--14720068 Score: 79
Period size: 20 Copynumber: 2.1 Consensus size: 21
14720016 AACACTAGTT
14720026 AATCTAAACCCT-AAACCATA
1 AATCTAAACCCTAAAACCATA
14720046 AATCTAAACCCTAAAACCATA
1 AATCTAAACCCTAAAACCATA
14720067 AA
1 AA
14720069 CCCTTAACAC
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 12 0.55
21 10 0.45
ACGTcount: A:0.53, C:0.28, G:0.00, T:0.19
Consensus pattern (21 bp):
AATCTAAACCCTAAAACCATA
Found at i:14720139 original size:15 final size:15
Alignment explanation
Indices: 14720112--14720149 Score: 60
Period size: 15 Copynumber: 2.6 Consensus size: 15
14720102 ATCCTTTAAA
14720112 CCATAAA-CCATAAT
1 CCATAAACCCATAAT
*
14720126 CCCTAAACCCATAAT
1 CCATAAACCCATAAT
14720141 CCATAAACC
1 CCATAAACC
14720150 TTAAAATGGT
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
14 6 0.29
15 15 0.71
ACGTcount: A:0.45, C:0.37, G:0.00, T:0.18
Consensus pattern (15 bp):
CCATAAACCCATAAT
Found at i:14720154 original size:22 final size:21
Alignment explanation
Indices: 14720107--14720154 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
14720097 ACCCCATCCT
*
14720107 TTAAACCATAAACCATAATCC
1 TTAAACCATAAACCATAAACC
* *
14720128 CTAAACCCATAATCCATAAACC
1 TTAAA-CCATAAACCATAAACC
14720150 TTAAA
1 TTAAA
14720155 ATGGTAACAC
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
21 4 0.18
22 18 0.82
ACGTcount: A:0.48, C:0.29, G:0.00, T:0.23
Consensus pattern (21 bp):
TTAAACCATAAACCATAAACC
Found at i:14720194 original size:14 final size:14
Alignment explanation
Indices: 14720175--14720209 Score: 52
Period size: 14 Copynumber: 2.5 Consensus size: 14
14720165 TTAAACCTAT
* *
14720175 CTAAACCATATACC
1 CTAAACCAAAAACC
14720189 CTAAACCAAAAACC
1 CTAAACCAAAAACC
14720203 CTAAACC
1 CTAAACC
14720210 CATAATCCAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 19 1.00
ACGTcount: A:0.49, C:0.37, G:0.00, T:0.14
Consensus pattern (14 bp):
CTAAACCAAAAACC
Found at i:14720248 original size:74 final size:75
Alignment explanation
Indices: 14720115--14720282 Score: 302
Period size: 74 Copynumber: 2.3 Consensus size: 75
14720105 CTTTAAACCA
* * *
14720115 TAAACCATAATCCCTAAACCCATAATCCATAAACCTTAAAATGGTAACACTTAAACCTATCTAAA
1 TAAACCAAAAACCCTAAACCCATAATCCATAAACCTTAAAATGGTAACACCTAAACCTATCTAAA
14720180 CCATATACCC
66 CCATATACCC
14720190 TAAACCAAAAACCCTAAACCCATAATCCAT-AACCTTAAAATGGTAACACCTAAACCTATCTAAA
1 TAAACCAAAAACCCTAAACCCATAATCCATAAACCTTAAAATGGTAACACCTAAACCTATCTAAA
14720254 CCATATACCC
66 CCATATACCC
14720264 TAAACCAAAAACCCTAAAC
1 TAAACCAAAAACCCTAAAC
14720283 TATAGTGATA
Statistics
Matches: 90, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
74 62 0.69
75 28 0.31
ACGTcount: A:0.46, C:0.30, G:0.02, T:0.21
Consensus pattern (75 bp):
TAAACCAAAAACCCTAAACCCATAATCCATAAACCTTAAAATGGTAACACCTAAACCTATCTAAA
CCATATACCC
Found at i:14720268 original size:14 final size:14
Alignment explanation
Indices: 14720249--14720282 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
14720239 CTAAACCTAT
* *
14720249 CTAAACCATATACC
1 CTAAACCAAAAACC
14720263 CTAAACCAAAAACC
1 CTAAACCAAAAACC
14720277 CTAAAC
1 CTAAAC
14720283 TATAGTGATA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.50, C:0.35, G:0.00, T:0.15
Consensus pattern (14 bp):
CTAAACCAAAAACC
Found at i:14720626 original size:40 final size:40
Alignment explanation
Indices: 14720581--14720666 Score: 111
Period size: 40 Copynumber: 2.1 Consensus size: 40
14720571 GCTCGAACGA
* * *
14720581 CGTTTTGC-AAAAAACGCCGCTAATGCGCGATCTTTAGCGG
1 CGTTTT-CTAAAAAACACCGCTAATGCGCAATCTTTAGCAG
* *
14720621 CGTTTTCTAAAAAGCACCGCTAATGCTCAATCTTTAGCAG
1 CGTTTTCTAAAAAACACCGCTAATGCGCAATCTTTAGCAG
14720661 CGTTTT
1 CGTTTT
14720667 TTATCCAAAC
Statistics
Matches: 40, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
39 1 0.03
40 39 0.98
ACGTcount: A:0.26, C:0.24, G:0.20, T:0.30
Consensus pattern (40 bp):
CGTTTTCTAAAAAACACCGCTAATGCGCAATCTTTAGCAG
Found at i:14735376 original size:20 final size:20
Alignment explanation
Indices: 14735359--14735397 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
14735349 TATCGATACT
*
14735359 TTTATTAAGGTATTGATATA
1 TTTACTAAGGTATTGATATA
*
14735379 TTTCCTAAGGTATTGATAT
1 TTTACTAAGGTATTGATAT
14735398 TCCTACTCCA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.31, C:0.05, G:0.15, T:0.49
Consensus pattern (20 bp):
TTTACTAAGGTATTGATATA
Found at i:14735402 original size:17 final size:19
Alignment explanation
Indices: 14735364--14735402 Score: 55
Period size: 20 Copynumber: 2.1 Consensus size: 19
14735354 ATACTTTTAT
14735364 TAAGGTATTGATATATTTCC
1 TAAGGTATTGA-ATATTTCC
14735384 TAAGGTATTG-ATA-TTCC
1 TAAGGTATTGAATATTTCC
14735401 TA
1 TA
14735403 CTCCAATGGT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 6 0.32
18 3 0.16
20 10 0.53
ACGTcount: A:0.31, C:0.10, G:0.15, T:0.44
Consensus pattern (19 bp):
TAAGGTATTGAATATTTCC
Found at i:14738200 original size:6 final size:6
Alignment explanation
Indices: 14738191--14738220 Score: 53
Period size: 6 Copynumber: 5.2 Consensus size: 6
14738181 AATGATATGA
14738191 AAATGG AAATGG AAATGG AAAT-G AAATGG A
1 AAATGG AAATGG AAATGG AAATGG AAATGG A
14738221 TGTTATAGTC
Statistics
Matches: 23, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
5 5 0.22
6 18 0.78
ACGTcount: A:0.53, C:0.00, G:0.30, T:0.17
Consensus pattern (6 bp):
AAATGG
Found at i:14738208 original size:12 final size:11
Alignment explanation
Indices: 14738157--14738220 Score: 53
Period size: 11 Copynumber: 5.6 Consensus size: 11
14738147 TTTGAATATA
14738157 AAAT-GAAATTG
1 AAATGGAAA-TG
14738168 AAAT-GAGAATG
1 AAATGGA-AATG
*
14738179 AGAAT-GATATG
1 A-AATGGAAATG
14738190 AAAATGGAAATGG
1 -AAATGGAAAT-G
14738203 AAATGGAAATG
1 AAATGGAAATG
14738214 AAATGGA
1 AAATGGA
14738221 TGTTATAGTC
Statistics
Matches: 46, Mismatches: 2, Indels: 10
0.79 0.03 0.17
Matches are distributed among these distances:
11 23 0.50
12 22 0.48
13 1 0.02
ACGTcount: A:0.53, C:0.00, G:0.27, T:0.20
Consensus pattern (11 bp):
AAATGGAAATG
Found at i:14738218 original size:17 final size:17
Alignment explanation
Indices: 14738157--14738220 Score: 60
Period size: 17 Copynumber: 3.7 Consensus size: 17
14738147 TTTGAATATA
*
14738157 AAATGAAATTGAAAT-G
1 AAATGAAATGGAAATGG
* *
14738173 AGAATGAGAAT-GATATGA
1 A-AATGA-AATGGAAATGG
14738191 AAATGGAAATGGAAATGG
1 AAAT-GAAATGGAAATGG
14738209 AAATGAAATGGA
1 AAATGAAATGGA
14738221 TGTTATAGTC
Statistics
Matches: 39, Mismatches: 4, Indels: 9
0.75 0.08 0.17
Matches are distributed among these distances:
16 1 0.03
17 23 0.59
18 15 0.38
ACGTcount: A:0.53, C:0.00, G:0.27, T:0.20
Consensus pattern (17 bp):
AAATGAAATGGAAATGG
Found at i:14741112 original size:41 final size:41
Alignment explanation
Indices: 14741045--14741187 Score: 146
Period size: 41 Copynumber: 3.5 Consensus size: 41
14741035 GTATTGGGTT
* * **
14741045 TTGAACCTAGTAGGCTTCGTGTCGGTGTAACGATTCAGGCC
1 TTGAGCCTAGCAGGCTTCGTACCGGTGTAACGATTCAGGCC
*
14741086 TTGAGCCTAGCAGGCCTCGTACCGGTGTAACGATTCAGGCC
1 TTGAGCCTAGCAGGCTTCGTACCGGTGTAACGATTCAGGCC
* * ** * *
14741127 CTG-GCCCTAGCAGGCTTCATGTCGGTGT-ATGAAATCAGGCC
1 TTGAG-CCTAGCAGGCTTCGTACCGGTGTAACG-ATTCAGGCC
*
14741168 TTGAGCCTAGTAGGCTTCGT
1 TTGAGCCTAGCAGGCTTCGT
14741188 GCAAGTGTAG
Statistics
Matches: 84, Mismatches: 15, Indels: 6
0.80 0.14 0.06
Matches are distributed among these distances:
40 3 0.04
41 80 0.95
42 1 0.01
ACGTcount: A:0.19, C:0.25, G:0.29, T:0.27
Consensus pattern (41 bp):
TTGAGCCTAGCAGGCTTCGTACCGGTGTAACGATTCAGGCC
Found at i:14745661 original size:131 final size:131
Alignment explanation
Indices: 14745427--14745727 Score: 368
Period size: 131 Copynumber: 2.3 Consensus size: 131
14745417 TTACTTTATC
* *
14745427 TATCATGAATAATCTTATTTAAGTTAGCTGATTTAATATTGCTACTCCAAACAACTCACTAATTT
1 TATCATGAACAATCTTATTTAAGTTAGCTGATTTAATATCGCTACTCCAAACAACTCACTAATTT
* * * * ** * ** *
14745492 AATATTACAGTTGATATCGTTAAGGTTCGCTAATTTAAGATTGCTATTTAAGTTCATTCAATTTA
66 AAGATTACAGCTAATATCATTAAGGTTCGCTAATTTAAGATCACAACCTAAGTTAATTCAATTTA
14745557 A
131 A
* * * ** *
14745558 TATCATGAACAATCTTATTTGAGTTAGCTGATTTAATATCGCTACTTCAAACAGCTCGTTGATTT
1 TATCATGAACAATCTTATTTAAGTTAGCTGATTTAATATCGCTACTCCAAACAACTCACTAATTT
* * * * **
14745623 AAGATTGCAGCTAATGTCATTAAGGTTCGTTGATTTAAGATCACAACCTAAGTTAATTTGATTTA
66 AAGATTACAGCTAATATCATTAAGGTTCGCTAATTTAAGATCACAACCTAAGTTAATTCAATTTA
14745688 A
131 A
* *
14745689 AATCATGAACAATCTTATTTAAGTTAGCTAATTTAATAT
1 TATCATGAACAATCTTATTTAAGTTAGCTGATTTAATAT
14745728 TGCTTTAGCT
Statistics
Matches: 143, Mismatches: 27, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
131 143 1.00
ACGTcount: A:0.34, C:0.14, G:0.12, T:0.40
Consensus pattern (131 bp):
TATCATGAACAATCTTATTTAAGTTAGCTGATTTAATATCGCTACTCCAAACAACTCACTAATTT
AAGATTACAGCTAATATCATTAAGGTTCGCTAATTTAAGATCACAACCTAAGTTAATTCAATTTA
A
Found at i:14745737 original size:20 final size:20
Alignment explanation
Indices: 14745712--14745751 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
14745702 CTTATTTAAG
14745712 TTAGCTAATTTAATATTGCT
1 TTAGCTAATTTAATATTGCT
14745732 TTAGCTAATTTAATATTGCT
1 TTAGCTAATTTAATATTGCT
14745752 ACTCCAAACA
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (20 bp):
TTAGCTAATTTAATATTGCT
Found at i:14745859 original size:151 final size:151
Alignment explanation
Indices: 14745581--14745874 Score: 381
Period size: 151 Copynumber: 1.9 Consensus size: 151
14745571 CTTATTTGAG
* * * ** *
14745581 TTAGCTGATTTAATATCGCTACTTCAAACAGCTCGTTGATTTAAGATTGCAGCTAATGTCATTAA
1 TTAGCTAATTTAATATCGCTACTCCAAACAACTCGTTGATTTAAGATCACAGCTAATATCATTAA
** * * * *
14745646 GGTTCGTTGATTTAAGATCACAACCTAAGTTAATTTGATTTAAAATCATGAACAATCTTATTTAA
66 GGTTCACTGATTTAAGATCACAACCGAAGTTAATTAGATTTAAAATCATCAACAATCATATTTAA
14745711 GTTAGCTAATTTAATATTGCT
131 GTTAGCTAATTTAATATTGCT
* * * *
14745732 TTAGCTAATTTAATATTGCTACTCCAAACAATTCGTTGATTTAAGATCATAGCTAATATCGTTAA
1 TTAGCTAATTTAATATCGCTACTCCAAACAACTCGTTGATTTAAGATCACAGCTAATATCATTAA
** * ** *
14745797 GGTTCACTGATTTAAGATTGCAACCGAAGTTTATTAGATTTAGTATCATCAACAATCATATTTGA
66 GGTTCACTGATTTAAGATCACAACCGAAGTTAATTAGATTTAAAATCATCAACAATCATATTTAA
*
14745862 GTTAGCTGATTTA
131 GTTAGCTAATTTA
14745875 CTATCACTGC
Statistics
Matches: 120, Mismatches: 23, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
151 120 1.00
ACGTcount: A:0.33, C:0.14, G:0.14, T:0.39
Consensus pattern (151 bp):
TTAGCTAATTTAATATCGCTACTCCAAACAACTCGTTGATTTAAGATCACAGCTAATATCATTAA
GGTTCACTGATTTAAGATCACAACCGAAGTTAATTAGATTTAAAATCATCAACAATCATATTTAA
GTTAGCTAATTTAATATTGCT
Found at i:14745903 original size:131 final size:131
Alignment explanation
Indices: 14745767--14746004 Score: 334
Period size: 131 Copynumber: 1.8 Consensus size: 131
14745757 AAACAATTCG
* * * * **
14745767 TTGATTTAAGATCATAGCTAATATCGTTAAGGTTCACTGATTTAAGATTGCAACCGAAGTTTATT
1 TTGATTTAAGATCACAGCTAACATCATTAAAGTTCACTGATTTAAGATCACAACCGAAGTTTATT
*
14745832 AGATTTAGTATCATCAACAATCAT-ATTTGAGTTAGCTGATTTACTATCACTGCTCCAAACAGCT
66 AGATTTAATATCATCAACAATC-TCATTTGAGTTAGCTGATTTACTATCACTGCTCCAAACAGCT
14745896 TA
130 TA
* * * * *
14745898 TTGATTTAAGATCGCAGTTGACATCATTAAAGTTCATTGATTTAAGATCACAACCTAAGTTTATT
1 TTGATTTAAGATCACAGCTAACATCATTAAAGTTCACTGATTTAAGATCACAACCGAAGTTTATT
* *
14745963 AGATTTAATATCATGAACAATCTCATTTGTGTTAGCTGATTT
66 AGATTTAATATCATCAACAATCTCATTTGAGTTAGCTGATTT
14746005 TCCAAACACT
Statistics
Matches: 92, Mismatches: 14, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
130 1 0.01
131 91 0.99
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (131 bp):
TTGATTTAAGATCACAGCTAACATCATTAAAGTTCACTGATTTAAGATCACAACCGAAGTTTATT
AGATTTAATATCATCAACAATCTCATTTGAGTTAGCTGATTTACTATCACTGCTCCAAACAGCTT
A
Found at i:14745970 original size:282 final size:282
Alignment explanation
Indices: 14745450--14746004 Score: 734
Period size: 282 Copynumber: 2.0 Consensus size: 282
14745440 CTTATTTAAG
* * * * *
14745450 TTAGCTGATTTAATATTGCTACTCCAAACAACTCACTAATTTAATATTACAGTTGATATCGTTAA
1 TTAGCTAATTTAATATTGCTACTCCAAACAACTCACTAATTTAAGATCACAGCTAATATCGTTAA
* * *** * *
14745515 GGTTCGCTAATTTAAGATTGCTATTTAAGTTCATTCAATTTAATATCATGAACAATCTTATTTGA
66 GGTTCACTAATTTAAGATTGCAACCGAAGTTCATTCAATTTAATATCATCAACAATCATATTTGA
* * * * **
14745580 GTTAGCTGATTTAATATCGCTACTTCAAACAGCTCGTTGATTTAAGATTGCAGCTAATGTCATTA
131 GTTAGCTGATTTAATATCACTACTCCAAACAGCTCATTGATTTAAGATCGCAGCTAACATCATTA
* * * *
14745645 AGGTTCGTTGATTTAAGATCACAACCTAAGTTAATTTGATTTAAAATCATGAACAATCTTATTTA
196 AAGTTCATTGATTTAAGATCACAACCTAAGTTAATTAGATTTAAAATCATGAACAATCTCATTTA
14745710 AGTTAGCTAATTTAATATTGCT
261 AGTTAGCTAATTTAATATTGCT
* ** * *
14745732 TTAGCTAATTTAATATTGCTACTCCAAACAATTCGTTGATTTAAGATCATAGCTAATATCGTTAA
1 TTAGCTAATTTAATATTGCTACTCCAAACAACTCACTAATTTAAGATCACAGCTAATATCGTTAA
* * *
14745797 GGTTCACTGATTTAAGATTGCAACCGAAGTTTATT-AGATTTAGTATCATCAACAATCATATTTG
66 GGTTCACTAATTTAAGATTGCAACCGAAGTTCATTCA-ATTTAATATCATCAACAATCATATTTG
* * * * *
14745861 AGTTAGCTGATTTACTATCACTGCTCCAAACAGCTTATTGATTTAAGATCGCAGTTGACATCATT
130 AGTTAGCTGATTTAATATCACTACTCCAAACAGCTCATTGATTTAAGATCGCAGCTAACATCATT
* *
14745926 AAAGTTCATTGATTTAAGATCACAACCTAAGTTTATTAGATTTAATATCATGAACAATCTCATTT
195 AAAGTTCATTGATTTAAGATCACAACCTAAGTTAATTAGATTTAAAATCATGAACAATCTCATTT
** *
14745991 GTGTTAGCTGATTT
260 AAGTTAGCTAATTT
14746005 TCCAAACACT
Statistics
Matches: 232, Mismatches: 40, Indels: 2
0.85 0.15 0.01
Matches are distributed among these distances:
281 1 0.00
282 231 1.00
ACGTcount: A:0.33, C:0.15, G:0.13, T:0.39
Consensus pattern (282 bp):
TTAGCTAATTTAATATTGCTACTCCAAACAACTCACTAATTTAAGATCACAGCTAATATCGTTAA
GGTTCACTAATTTAAGATTGCAACCGAAGTTCATTCAATTTAATATCATCAACAATCATATTTGA
GTTAGCTGATTTAATATCACTACTCCAAACAGCTCATTGATTTAAGATCGCAGCTAACATCATTA
AAGTTCATTGATTTAAGATCACAACCTAAGTTAATTAGATTTAAAATCATGAACAATCTCATTTA
AGTTAGCTAATTTAATATTGCT
Found at i:14747188 original size:22 final size:20
Alignment explanation
Indices: 14747140--14747178 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
14747130 TTTAAATTAA
*
14747140 TTAAAATCATTTTGACTTGG
1 TTAAAATCATTTTCACTTGG
14747160 TTAAAATCATTTTCACTTG
1 TTAAAATCATTTTCACTTG
14747179 ATTTTAAAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.31, C:0.13, G:0.10, T:0.46
Consensus pattern (20 bp):
TTAAAATCATTTTCACTTGG
Found at i:14747317 original size:13 final size:13
Alignment explanation
Indices: 14747301--14747325 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14747291 CACTTCAATT
14747301 TATTTTATCAAAA
1 TATTTTATCAAAA
14747314 TATTTTATCAAA
1 TATTTTATCAAA
14747326 TAAAACTTGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.08, G:0.00, T:0.48
Consensus pattern (13 bp):
TATTTTATCAAAA
Found at i:14747439 original size:39 final size:39
Alignment explanation
Indices: 14747383--14747457 Score: 132
Period size: 39 Copynumber: 1.9 Consensus size: 39
14747373 ATTATGAATT
* *
14747383 AGCGTTGGTATCTTGGGGGCCAACGAGCTCTTCATCCTC
1 AGCGTTAGTATCCTGGGGGCCAACGAGCTCTTCATCCTC
14747422 AGCGTTAGTATCCTGGGGGCCAACGAGCTCTTCATC
1 AGCGTTAGTATCCTGGGGGCCAACGAGCTCTTCATC
14747458 TTTTCATTCA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.17, C:0.28, G:0.28, T:0.27
Consensus pattern (39 bp):
AGCGTTAGTATCCTGGGGGCCAACGAGCTCTTCATCCTC
Found at i:14752442 original size:2 final size:2
Alignment explanation
Indices: 14752437--14752464 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
14752427 AACTACTATT
14752437 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA
14752465 AAAGCAACAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:14762943 original size:2 final size:2
Alignment explanation
Indices: 14762936--14762978 Score: 86
Period size: 2 Copynumber: 21.5 Consensus size: 2
14762926 TTCATTTAAG
14762936 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
1 TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC TC
14762978 T
1 T
14762979 ATATATATAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 41 1.00
ACGTcount: A:0.00, C:0.49, G:0.00, T:0.51
Consensus pattern (2 bp):
TC
Found at i:14769552 original size:31 final size:31
Alignment explanation
Indices: 14769426--14769674 Score: 152
Period size: 31 Copynumber: 8.1 Consensus size: 31
14769416 TGTATATATA
*
14769426 TATACATTGCTGAAATTTATTTGTATATGGT
1 TATACATTGCTGAAATTGATTTGTATATGGT
* * * * *
14769457 TATACATTGTTGAAATAGAATTGTATGTGGA
1 TATACATTGCTGAAATTGATTTGTATATGGT
* * * **
14769488 TATA-AGTTGCCGAAA-TAATTCGTATATAAT
1 TATACA-TTGCTGAAATTGATTTGTATATGGT
* *
14769518 TATACATTACTGAAATTTATTTGTATATGGT
1 TATACATTGCTGAAATTGATTTGTATATGGT
* * * **
14769549 TATACATT-ATCGAAATTGATTTATATAAGAA
1 TATACATTGCT-GAAATTGATTTGTATATGGT
* ** * *
14769580 AATAGGTTG-TCG-AATTGATTCGTATATGAT
1 TATACATTGCT-GAAATTGATTTGTATATGGT
* **
14769610 TATACATTG-TCAAATTTGATTCATATATGGT
1 TATACATTGCTGAAA-TTGATTTGTATATGGT
* * *
14769641 TATACATTGC-CAAATTGATTTGTGTATGAT
1 TATACATTGCTGAAATTGATTTGTATATGGT
14769671 TATA
1 TATA
14769675 TGTTGCCAAA
Statistics
Matches: 165, Mismatches: 45, Indels: 17
0.73 0.20 0.07
Matches are distributed among these distances:
30 59 0.36
31 106 0.64
ACGTcount: A:0.35, C:0.07, G:0.16, T:0.43
Consensus pattern (31 bp):
TATACATTGCTGAAATTGATTTGTATATGGT
Found at i:14769601 original size:92 final size:89
Alignment explanation
Indices: 14769417--14769661 Score: 256
Period size: 92 Copynumber: 2.7 Consensus size: 89
14769407 TAATTTAAAT
* * * *
14769417 GTATATATATATACATTGCTGAAATTTATTTGTATATGGTTATACATTGTTGAAATAGAATTGTA
1 GTATATAT-TATACATT-CTGAAATTTATTTGTATATGGTTATACATT-TCGAAATTGATTTATA
** * *
14769482 TGTGGATATAAGTTGCCGAAATAATTC
63 TAAGAAAATAAGTTGCCGAAATAATTC
14769509 GTATATAATTATACATTACTGAAATTTATTTGTATATGGTTATACATTATCGAAATTGATTTATA
1 GTATAT-ATTATACATT-CTGAAATTTATTTGTATATGGTTATACATT-TCGAAATTGATTTATA
* * * *
14769574 TAAGAAAATAGGTTGTCGAATTGATTC
63 TAAGAAAATAAGTTGCCGAAATAATTC
* * ** * *
14769601 GTATATGATTATACATTGTCAAATTTGATTCATATATGGTTATACATTGCCAAATTGATTT
1 GTATAT-ATTATACATTCTGAAATTT-ATTTGTATATGGTTATACATTTCGAAATTGATTT
14769662 GTGTATGATT
Statistics
Matches: 130, Mismatches: 21, Indels: 5
0.83 0.13 0.03
Matches are distributed among these distances:
91 18 0.14
92 110 0.85
93 2 0.02
ACGTcount: A:0.35, C:0.07, G:0.15, T:0.42
Consensus pattern (89 bp):
GTATATATTATACATTCTGAAATTTATTTGTATATGGTTATACATTTCGAAATTGATTTATATAA
GAAAATAAGTTGCCGAAATAATTC
Found at i:14769690 original size:92 final size:91
Alignment explanation
Indices: 14769505--14769711 Score: 227
Period size: 92 Copynumber: 2.3 Consensus size: 91
14769495 TGCCGAAATA
* * * ** * *
14769505 ATTCGTATATAATTATACATTACTGAAATTTATTTGTATATGGTTATACATTATCGAAATTGATT
1 ATTCGTATATGATTATACATT-GTCAAATTTATTCATATATGGTTATACATTAGCCAAATTGATT
* *
14769570 TATATAAGAAAATAGGTTGTCGAATTG
65 TATATAAGAAAATAGGTTGCCAAATTG
14769597 ATTCGTATATGATTATACATTGTCAAATTTGATTCATATATGGTTATACATT-GCCAAATTGATT
1 ATTCGTATATGATTATACATTGTCAAATTT-ATTCATATATGGTTATACATTAGCCAAATTGATT
* * * ** *
14769661 TGTGTATGATTATATGTTGCCAAATTTG
65 TATATAAGAAAATAGGTTGCCAAA-TTG
* *
14769689 ATTCGTATATGAATATAAATTGT
1 ATTCGTATATGATTATACATTGT
14769712 TGAATTGACT
Statistics
Matches: 96, Mismatches: 17, Indels: 4
0.82 0.15 0.03
Matches are distributed among these distances:
91 33 0.34
92 63 0.66
ACGTcount: A:0.34, C:0.08, G:0.14, T:0.43
Consensus pattern (91 bp):
ATTCGTATATGATTATACATTGTCAAATTTATTCATATATGGTTATACATTAGCCAAATTGATTT
ATATAAGAAAATAGGTTGCCAAATTG
Found at i:14769700 original size:31 final size:31
Alignment explanation
Indices: 14769594--14769710 Score: 146
Period size: 31 Copynumber: 3.8 Consensus size: 31
14769584 GGTTGTCGAA
*
14769594 TTGATTCGTATATGATTATACATTGTCAAAT
1 TTGATTCGTATATGATTATACATTGCCAAAT
* *
14769625 TTGATTCATATATGGTTATACATTGCCAAA-
1 TTGATTCGTATATGATTATACATTGCCAAAT
* * **
14769655 TTGATTTGTGTATGATTATATGTTGCCAAAT
1 TTGATTCGTATATGATTATACATTGCCAAAT
* *
14769686 TTGATTCGTATATGAATATAAATTG
1 TTGATTCGTATATGATTATACATTG
14769711 TTGAATTGAC
Statistics
Matches: 71, Mismatches: 14, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
30 24 0.34
31 47 0.66
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.44
Consensus pattern (31 bp):
TTGATTCGTATATGATTATACATTGCCAAAT
Found at i:14769718 original size:61 final size:61
Alignment explanation
Indices: 14769531--14769719 Score: 164
Period size: 61 Copynumber: 3.1 Consensus size: 61
14769521 ACATTACTGA
* * * * * * * * **
14769531 AATTTATTTGTATATGGTTATACATTATCGAAA-TTGATTTATATAAGAAAATAGGTTGTCG
1 AATTGATTCGTATATGATTATACATT-GCCAAATTTGATTCATATATGAATATAAATTGTCG
* ** * * *
14769592 AATTGATTCGTATATGATTATACATTGTCAAATTTGATTCATATATGGTTATACATTGCCA
1 AATTGATTCGTATATGATTATACATTGCCAAATTTGATTCATATATGAATATAAATTGTCG
* * ** * *
14769653 AATTGATTTGTGTATGATTATATGTTGCCAAATTTGATTCGTATATGAATATAAATTGTTG
1 AATTGATTCGTATATGATTATACATTGCCAAATTTGATTCATATATGAATATAAATTGTCG
14769714 AATTGA
1 AATTGA
14769720 CTTGAGCATT
Statistics
Matches: 100, Mismatches: 27, Indels: 2
0.78 0.21 0.02
Matches are distributed among these distances:
60 3 0.03
61 97 0.97
ACGTcount: A:0.34, C:0.07, G:0.16, T:0.43
Consensus pattern (61 bp):
AATTGATTCGTATATGATTATACATTGCCAAATTTGATTCATATATGAATATAAATTGTCG
Found at i:14769980 original size:84 final size:83
Alignment explanation
Indices: 14769835--14770151 Score: 472
Period size: 84 Copynumber: 3.9 Consensus size: 83
14769825 AGAACTTCGG
*
14769835 ACGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGATTCGTGTAAGACCATGCCTGGGACA
1 ACGTGTAAGACCATGTCTGGG-CATTGGCATCGTATATGATTCGTGTAAGACCATGTCTGGGACA
14769900 TTGGCATCGATATGAGATT
65 TTGGCATCGATATGAGATT
14769919 ACGTGTAAGACCATGTCTGGGACATTGGCATCGTATATGATTCGTGTAAGACCATGTCTGGGACA
1 ACGTGTAAGACCATGTCTGGG-CATTGGCATCGTATATGATTCGTGTAAGACCATGTCTGGGACA
14769984 TTGGCATCGATATGAGATT
65 TTGGCATCGATATGAGATT
14770003 ACGTGTAAGACCATGTCT--G----GGCATCGTATATGATTCGTGTAAGACCATGTCTGGGACAT
1 ACGTGTAAGACCATGTCTGGGCATTGGCATCGTATATGATTCGTGTAAGACCATGTCTGGGACAT
14770062 TGGCATCGATATGAGATT
66 TGGCATCGATATGAGATT
* * *
14770080 -CGTGTAAGACCATAG-CTGGGCTATTGGCATCGATATATGATAGCATGTAAGACCATATCTGGG
1 ACGTGTAAGACCAT-GTCTGGGC-ATTGGCATCG-TATATGAT-TCGTGTAAGACCATGTCTGGG
*
14770143 ATA-TGGCAT
62 ACATTGGCAT
14770152 TGTGTGAGTT
Statistics
Matches: 218, Mismatches: 5, Indels: 20
0.90 0.02 0.08
Matches are distributed among these distances:
76 15 0.07
77 59 0.27
78 1 0.00
82 1 0.00
83 7 0.03
84 115 0.53
85 20 0.09
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (83 bp):
ACGTGTAAGACCATGTCTGGGCATTGGCATCGTATATGATTCGTGTAAGACCATGTCTGGGACAT
TGGCATCGATATGAGATT
Found at i:14770044 original size:34 final size:35
Alignment explanation
Indices: 14769986--14770057 Score: 112
Period size: 34 Copynumber: 2.1 Consensus size: 35
14769976 CTGGGACATT
14769986 GGCATCGATATGAGATTACGTGTAAGACCATGTCTG
1 GGCATCGATAT-AGATTACGTGTAAGACCATGTCTG
14770022 GGCATCG-TATATGATT-CGTGTAAGACCATGTCTG
1 GGCATCGATATA-GATTACGTGTAAGACCATGTCTG
14770056 GG
1 GG
14770058 ACATTGGCAT
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
34 21 0.60
35 7 0.20
36 7 0.20
ACGTcount: A:0.25, C:0.17, G:0.29, T:0.29
Consensus pattern (35 bp):
GGCATCGATATAGATTACGTGTAAGACCATGTCTG
Found at i:14770072 original size:77 final size:76
Alignment explanation
Indices: 14769945--14770100 Score: 287
Period size: 77 Copynumber: 2.0 Consensus size: 76
14769935 CTGGGACATT
14769945 GGCATCGTATATGATTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTACGTGTA
1 GGCATCGTATATGATTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATT-CGTGTA
14770010 AGACCAT-GTCTG
65 AGACCATAG-CTG
14770022 GGCATCGTATATGATTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTCGTGTAA
1 GGCATCGTATATGATTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTCGTGTAA
14770087 GACCATAGCTG
66 GACCATAGCTG
14770098 GGC
1 GGC
14770101 TATTGGCATC
Statistics
Matches: 78, Mismatches: 0, Indels: 3
0.96 0.00 0.04
Matches are distributed among these distances:
76 19 0.24
77 59 0.76
ACGTcount: A:0.26, C:0.17, G:0.28, T:0.29
Consensus pattern (76 bp):
GGCATCGTATATGATTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATTCGTGTAA
GACCATAGCTG
Found at i:14770119 original size:161 final size:161
Alignment explanation
Indices: 14769861--14770151 Score: 473
Period size: 161 Copynumber: 1.8 Consensus size: 161
14769851 CTGGGACATT
14769861 GGCATCGTATATGATTCGTGTAAGACCATGCCTGGGACATTGGCATCGATATGAGATTACGTGTA
1 GGCATCGTATATGATTCGTGTAAGACCATGCCTGGGACATTGGCATCGATATGAGATTACGTGTA
* * *
14769926 AGACCATGTCTGGGACATTGGCATCGTATATGAT-TCGTGTAAGACCATGTCTGGGACATTGGCA
66 AGACCATGTCTGGGACATTGGCATCGTATATGATAGCATGTAAGACCATATCTGGGACA-TGGCA
14769990 TCGATATGAGATTACGTGTAAGACCATGTCTG
130 TCGATATGAGATTACGTGTAAGACCATGTCTG
*
14770022 GGCATCGTATATGATTCGTGTAAGACCATGTCTGGGACATTGGCATCGATATGAGATT-CGTGTA
1 GGCATCGTATATGATTCGTGTAAGACCATGCCTGGGACATTGGCATCGATATGAGATTACGTGTA
*
14770086 AGACCATAG-CTGGG-CTATTGGCATCGATATATGATAGCATGTAAGACCATATCTGGGATATGG
66 AGACCAT-GTCTGGGAC-ATTGGCATCG-TATATGATAGCATGTAAGACCATATCTGGGACATGG
14770149 CAT
128 CAT
14770152 TGTGTGAGTT
Statistics
Matches: 121, Mismatches: 5, Indels: 8
0.90 0.04 0.06
Matches are distributed among these distances:
159 1 0.01
160 28 0.23
161 72 0.60
162 20 0.17
ACGTcount: A:0.27, C:0.17, G:0.27, T:0.29
Consensus pattern (161 bp):
GGCATCGTATATGATTCGTGTAAGACCATGCCTGGGACATTGGCATCGATATGAGATTACGTGTA
AGACCATGTCTGGGACATTGGCATCGTATATGATAGCATGTAAGACCATATCTGGGACATGGCAT
CGATATGAGATTACGTGTAAGACCATGTCTG
Found at i:14774089 original size:16 final size:17
Alignment explanation
Indices: 14774068--14774107 Score: 55
Period size: 16 Copynumber: 2.4 Consensus size: 17
14774058 TATGAACATT
*
14774068 AGACACAAACAAT-ATA
1 AGACACAAACAATAACA
*
14774084 AGACACAAGCAATAACA
1 AGACACAAACAATAACA
14774101 AGACACA
1 AGACACA
14774108 TAATGACGCA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
16 12 0.57
17 9 0.43
ACGTcount: A:0.60, C:0.23, G:0.10, T:0.07
Consensus pattern (17 bp):
AGACACAAACAATAACA
Found at i:14783547 original size:25 final size:25
Alignment explanation
Indices: 14783519--14783607 Score: 83
Period size: 25 Copynumber: 3.6 Consensus size: 25
14783509 CTTATGAGTG
14783519 TCCCGATATATGGCTCTTCGGAGCT
1 TCCCGATATATGGCTCTTCGGAGCT
** **
14783544 TCCCGATAGCTGGCTCTTATGAGCT
1 TCCCGATATATGGCTCTTCGGAGCT
** *
14783569 TCTTGAT-TAATGGCTCTCCGGAGCT
1 TCCCGATAT-ATGGCTCTTCGGAGCT
*
14783594 TCCCAATAT-TGGCT
1 TCCCGATATATGGCT
14783608 TGCTTGAACT
Statistics
Matches: 48, Mismatches: 14, Indels: 5
0.72 0.21 0.07
Matches are distributed among these distances:
24 5 0.10
25 42 0.88
26 1 0.02
ACGTcount: A:0.17, C:0.27, G:0.22, T:0.34
Consensus pattern (25 bp):
TCCCGATATATGGCTCTTCGGAGCT
Found at i:14783666 original size:25 final size:25
Alignment explanation
Indices: 14783635--14783699 Score: 94
Period size: 25 Copynumber: 2.6 Consensus size: 25
14783625 TGCGGCTCTT
*
14783635 ATGAGCTTCCCGTTATACAACTCGA
1 ATGAGCTTCCCGTTATACAACTCAA
** *
14783660 ATGAGCTTTTCATTATACAACTCAA
1 ATGAGCTTCCCGTTATACAACTCAA
14783685 ATGAGCTTCCCGTTA
1 ATGAGCTTCCCGTTA
14783700 CATGGCTCAC
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.29, C:0.25, G:0.14, T:0.32
Consensus pattern (25 bp):
ATGAGCTTCCCGTTATACAACTCAA
Found at i:14785688 original size:35 final size:35
Alignment explanation
Indices: 14785648--14785719 Score: 135
Period size: 35 Copynumber: 2.1 Consensus size: 35
14785638 TTCAACCGCG
14785648 TAATACTGCTTAGTATTAATTAAACATTAGATAAC
1 TAATACTGCTTAGTATTAATTAAACATTAGATAAC
*
14785683 TAATACTGCTTAGTATTAGTTAAACATTAGATAAC
1 TAATACTGCTTAGTATTAATTAAACATTAGATAAC
14785718 TA
1 TA
14785720 GTGAGCCAAT
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
35 36 1.00
ACGTcount: A:0.42, C:0.11, G:0.10, T:0.38
Consensus pattern (35 bp):
TAATACTGCTTAGTATTAATTAAACATTAGATAAC
Found at i:14787630 original size:42 final size:42
Alignment explanation
Indices: 14787579--14787663 Score: 143
Period size: 42 Copynumber: 2.0 Consensus size: 42
14787569 TGAGTAAGGC
* **
14787579 TCCGTAGATGTAGAATTAGTGAATCTGAATTATGTTAAAAAA
1 TCCGTAGATGTAGAATTAGTGAATCCGAATTACATTAAAAAA
14787621 TCCGTAGATGTAGAATTAGTGAATCCGAATTACATTAAAAAA
1 TCCGTAGATGTAGAATTAGTGAATCCGAATTACATTAAAAAA
14787663 T
1 T
14787664 ATCATCTATT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
42 40 1.00
ACGTcount: A:0.41, C:0.09, G:0.18, T:0.32
Consensus pattern (42 bp):
TCCGTAGATGTAGAATTAGTGAATCCGAATTACATTAAAAAA
Found at i:14788103 original size:32 final size:32
Alignment explanation
Indices: 14788077--14788163 Score: 102
Period size: 32 Copynumber: 2.7 Consensus size: 32
14788067 ATAAAATCAT
*
14788077 TATTTCTAATAACATTATTTTTATAAAAAAAA
1 TATTTCAAATAACATTATTTTTATAAAAAAAA
* ****
14788109 TATTTCAAATATCATTATTTTTATATGTGAAA
1 TATTTCAAATAACATTATTTTTATAAAAAAAA
*
14788141 TATTTCAAATATCATTATATTTT
1 TATTTCAAATAACATTAT-TTTT
14788164 TACCTATATT
Statistics
Matches: 48, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
32 44 0.92
33 4 0.08
ACGTcount: A:0.41, C:0.07, G:0.02, T:0.49
Consensus pattern (32 bp):
TATTTCAAATAACATTATTTTTATAAAAAAAA
Found at i:14788160 original size:17 final size:17
Alignment explanation
Indices: 14788108--14788162 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 17
14788098 TATAAAAAAA
14788108 ATATTTCAAATATCATT
1 ATATTTCAAATATCATT
* * * * *
14788125 AT-TTTTATATGTGA-A
1 ATATTTCAAATATCATT
14788140 ATATTTCAAATATCATT
1 ATATTTCAAATATCATT
14788157 ATATTT
1 ATATTT
14788163 TTACCTATAT
Statistics
Matches: 26, Mismatches: 10, Indels: 4
0.65 0.25 0.10
Matches are distributed among these distances:
15 2 0.08
16 16 0.62
17 8 0.31
ACGTcount: A:0.38, C:0.07, G:0.04, T:0.51
Consensus pattern (17 bp):
ATATTTCAAATATCATT
Found at i:14795030 original size:15 final size:15
Alignment explanation
Indices: 14795010--14795039 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
14795000 ATTATTAAAA
14795010 ATAATTTAATAATAT
1 ATAATTTAATAATAT
14795025 ATAATTTAATAATAT
1 ATAATTTAATAATAT
14795040 TTTTAACATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (15 bp):
ATAATTTAATAATAT
Found at i:14797350 original size:11 final size:9
Alignment explanation
Indices: 14797333--14797425 Score: 73
Period size: 9 Copynumber: 9.9 Consensus size: 9
14797323 ATATATTCTC
14797333 TAATTTTTA
1 TAATTTTTA
*
14797342 GTAAATTTTAAA
1 -T-AATTTT-TA
14797354 TAATTTTTA
1 TAATTTTTA
*
14797363 TATTTTTTA
1 TAATTTTTA
*
14797372 TTAAATTTTAA
1 -T-AATTTTTA
*
14797383 TAATTTTAA
1 TAATTTTTA
14797392 TAATTTTTA
1 TAATTTTTA
*
14797401 TTGATTTTTA
1 -TAATTTTTA
14797411 T--TTTTTA
1 TAATTTTTA
14797418 TAATTTTT
1 TAATTTTT
14797426 TTATCACATG
Statistics
Matches: 69, Mismatches: 7, Indels: 15
0.76 0.08 0.16
Matches are distributed among these distances:
7 7 0.10
9 31 0.45
10 17 0.25
11 13 0.19
12 1 0.01
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (9 bp):
TAATTTTTA
Found at i:14797399 original size:10 final size:10
Alignment explanation
Indices: 14797333--14797425 Score: 72
Period size: 10 Copynumber: 9.8 Consensus size: 10
14797323 ATATATTCTC
*
14797333 TAATTTTTAG
1 TAATTTTTAA
*
14797343 TAAATTTTAAA
1 T-AATTTTTAA
14797354 TAATTTTT-A
1 TAATTTTTAA
* *
14797363 TATTTTTTAT
1 TAATTTTTAA
*
14797373 TAAATTTTAA
1 TAATTTTTAA
14797383 TAA-TTTTAA
1 TAATTTTTAA
*
14797392 TAATTTTTAT
1 TAATTTTTAA
*
14797402 TGATTTTT-A
1 TAATTTTTAA
14797411 T--TTTTT-A
1 TAATTTTTAA
14797418 TAATTTTT
1 TAATTTTT
14797426 TTATCACATG
Statistics
Matches: 67, Mismatches: 11, Indels: 11
0.75 0.12 0.12
Matches are distributed among these distances:
7 7 0.10
9 23 0.34
10 29 0.43
11 8 0.12
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (10 bp):
TAATTTTTAA
Found at i:14797401 original size:29 final size:30
Alignment explanation
Indices: 14797333--14797402 Score: 106
Period size: 29 Copynumber: 2.4 Consensus size: 30
14797323 ATATATTCTC
* *
14797333 TAATTTTTAGTAAATTTTAAATAATTTTTA
1 TAATTTTTATTAAATTTTAAATAATTTTAA
*
14797363 TATTTTTTATTAAATTTT-AATAATTTTAA
1 TAATTTTTATTAAATTTTAAATAATTTTAA
14797392 TAATTTTTATT
1 TAATTTTTATT
14797403 GATTTTTATT
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
29 20 0.56
30 16 0.44
ACGTcount: A:0.37, C:0.00, G:0.01, T:0.61
Consensus pattern (30 bp):
TAATTTTTATTAAATTTTAAATAATTTTAA
Found at i:14797407 original size:19 final size:18
Alignment explanation
Indices: 14797346--14797408 Score: 54
Period size: 19 Copynumber: 3.3 Consensus size: 18
14797336 TTTTTAGTAA
14797346 ATTTTAAATAATTTTTATAT
1 ATTTT-AATAATTTTTAT-T
* * * *
14797366 TTTTTATTAAATTTTAATA
1 ATTTTAAT-AATTTTTATT
14797385 ATTTTAATAATTTTTATT
1 ATTTTAATAATTTTTATT
14797403 GATTTT
1 -ATTTT
14797409 TATTTTTTAT
Statistics
Matches: 33, Mismatches: 8, Indels: 5
0.72 0.17 0.11
Matches are distributed among these distances:
18 8 0.24
19 13 0.39
20 12 0.36
ACGTcount: A:0.35, C:0.00, G:0.02, T:0.63
Consensus pattern (18 bp):
ATTTTAATAATTTTTATT
Found at i:14797409 original size:29 final size:29
Alignment explanation
Indices: 14797333--14797425 Score: 102
Period size: 29 Copynumber: 3.3 Consensus size: 29
14797323 ATATATTCTC
* *
14797333 TAATTTTTAGTAAATTTTAAATAATTTTTA
1 TAATTTTTA-TTAATTTTTAATAATTTTTA
* * *
14797363 TATTTTTTATTAAATTTTAATAATTTTAA
1 TAATTTTTATTAATTTTTAATAATTTTTA
*
14797392 TAATTTTTATTGATTTTT-AT--TTTTTA
1 TAATTTTTATTAATTTTTAATAATTTTTA
14797418 TAATTTTT
1 TAATTTTT
14797426 TTATCACATG
Statistics
Matches: 54, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
26 13 0.24
28 2 0.04
29 31 0.57
30 8 0.15
ACGTcount: A:0.33, C:0.00, G:0.02, T:0.65
Consensus pattern (29 bp):
TAATTTTTATTAATTTTTAATAATTTTTA
Found at i:14800860 original size:18 final size:19
Alignment explanation
Indices: 14800832--14800868 Score: 58
Period size: 18 Copynumber: 2.0 Consensus size: 19
14800822 TGCAACTTGC
*
14800832 TTTGTTTGTTGGTATGTTT
1 TTTGTTTGTTGCTATGTTT
14800851 TTTG-TTGTTGCTATGTTT
1 TTTGTTTGTTGCTATGTTT
14800869 GATCAATGTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
18 13 0.76
19 4 0.24
ACGTcount: A:0.05, C:0.03, G:0.24, T:0.68
Consensus pattern (19 bp):
TTTGTTTGTTGCTATGTTT
Found at i:14801442 original size:21 final size:21
Alignment explanation
Indices: 14801418--14801458 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
14801408 CACCTACAGT
*
14801418 GGTATCGTAATATCCACCTTG
1 GGTATCGCAATATCCACCTTG
*
14801439 GGTATCGCGATATCCACCTT
1 GGTATCGCAATATCCACCTT
14801459 CCAAGAGGGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.32
Consensus pattern (21 bp):
GGTATCGCAATATCCACCTTG
Found at i:14804587 original size:31 final size:31
Alignment explanation
Indices: 14804552--14804615 Score: 128
Period size: 31 Copynumber: 2.1 Consensus size: 31
14804542 TTTGCATTTT
14804552 AGGGAATTTTAATTAGCATTTGTTATATTGC
1 AGGGAATTTTAATTAGCATTTGTTATATTGC
14804583 AGGGAATTTTAATTAGCATTTGTTATATTGC
1 AGGGAATTTTAATTAGCATTTGTTATATTGC
14804614 AG
1 AG
14804616 TTGGACTTGG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.30, C:0.06, G:0.20, T:0.44
Consensus pattern (31 bp):
AGGGAATTTTAATTAGCATTTGTTATATTGC
Found at i:14805981 original size:37 final size:37
Alignment explanation
Indices: 14805931--14806004 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
14805921 CGAAAAAAGA
14805931 AAGAAAATTAAGAGTTTTTAAAATTCCTCAAAATATT
1 AAGAAAATTAAGAGTTTTTAAAATTCCTCAAAATATT
14805968 AAGAAAATTAAGAGTTTTTAAAATTCCTCAAAATATT
1 AAGAAAATTAAGAGTTTTTAAAATTCCTCAAAATATT
14806005 TAAAGCTTTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.49, C:0.08, G:0.08, T:0.35
Consensus pattern (37 bp):
AAGAAAATTAAGAGTTTTTAAAATTCCTCAAAATATT
Done.