Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 145 of 167
Found at i:48134030 original size:13 final size:13
Alignment explanation
Indices: 48133996--48134034 Score: 51
Period size: 13 Copynumber: 3.0 Consensus size: 13
48133986 TTTGGCAATG
*
48133996 CTTTTGAAAAGTG
1 CTTTTGAAAAGTT
* *
48134009 CTATGGAAAAGTT
1 CTTTTGAAAAGTT
48134022 CTTTTGAAAAGTT
1 CTTTTGAAAAGTT
48134035 TGGTTTAAAA
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.38
Consensus pattern (13 bp):
CTTTTGAAAAGTT
Found at i:48134656 original size:24 final size:22
Alignment explanation
Indices: 48134581--48134658 Score: 74
Period size: 21 Copynumber: 3.6 Consensus size: 22
48134571 CCTGCAAAAG
48134581 AAAGCAA-AAAA-A-AGGAAAC
1 AAAGCAAGAAAACAGAGGAAAC
* *
48134600 AAAGCAAGACAACAGAGCAAA-
1 AAAGCAAGAAAACAGAGGAAAC
* *
48134621 AAGGCAAAAAAACAGAGTAGAAAC
1 AAAGCAAGAAAACAGAG--GAAAC
48134645 AAAGCAAGAAAACA
1 AAAGCAAGAAAACA
48134659 AGCAAAAGCA
Statistics
Matches: 45, Mismatches: 8, Indels: 7
0.75 0.13 0.12
Matches are distributed among these distances:
19 7 0.16
20 3 0.07
21 15 0.33
22 5 0.11
23 3 0.07
24 12 0.27
ACGTcount: A:0.67, C:0.14, G:0.18, T:0.01
Consensus pattern (22 bp):
AAAGCAAGAAAACAGAGGAAAC
Found at i:48134837 original size:99 final size:99
Alignment explanation
Indices: 48134711--48134909 Score: 371
Period size: 99 Copynumber: 2.0 Consensus size: 99
48134701 TATAAAAGCC
48134711 TAGAAACCCAAATATTGTAGAACACATGAATATTGAGCAATCAAAAAGTAAAAATACAAGAAAAA
1 TAGAAACCCAAATATTGTAGAACACATGAATATTGAGCAATCAAAAAGTAAAAATACAAGAAAAA
*
48134776 AGGTTGACTATTTCTTTCTATTCCTTGTTCTCAT
66 AGGTTGACTATTTATTTCTATTCCTTGTTCTCAT
48134810 TAGAAACCCAAATATTGTAGAACACATGAATATTGAGCAATCAAAAAGTAAAAATACAAGAAAAA
1 TAGAAACCCAAATATTGTAGAACACATGAATATTGAGCAATCAAAAAGTAAAAATACAAGAAAAA
* *
48134875 AGGTTGACTATTTATTTCTATTTCTTGTTTTCAT
66 AGGTTGACTATTTATTTCTATTCCTTGTTCTCAT
48134909 T
1 T
48134910 TCATTTCATT
Statistics
Matches: 97, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
99 97 1.00
ACGTcount: A:0.43, C:0.14, G:0.12, T:0.32
Consensus pattern (99 bp):
TAGAAACCCAAATATTGTAGAACACATGAATATTGAGCAATCAAAAAGTAAAAATACAAGAAAAA
AGGTTGACTATTTATTTCTATTCCTTGTTCTCAT
Found at i:48136138 original size:24 final size:23
Alignment explanation
Indices: 48136084--48136142 Score: 75
Period size: 23 Copynumber: 2.5 Consensus size: 23
48136074 GTTATTATAT
* *
48136084 ATTATTTATTTAAAATTGTTTTG
1 ATTACTTATTTTAAATTGTTTTG
48136107 ATTACTTATTTTAAATTGTTTT-
1 ATTACTTATTTTAAATTGTTTTG
48136129 ATATACCTTATTTT
1 AT-TA-CTTATTTT
48136143 GAACTCTATT
Statistics
Matches: 32, Mismatches: 2, Indels: 3
0.86 0.05 0.08
Matches are distributed among these distances:
22 2 0.06
23 22 0.69
24 8 0.25
ACGTcount: A:0.29, C:0.05, G:0.05, T:0.61
Consensus pattern (23 bp):
ATTACTTATTTTAAATTGTTTTG
Found at i:48137730 original size:13 final size:13
Alignment explanation
Indices: 48137712--48137740 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
48137702 AAATTTCACA
48137712 ATATCAAAATAAT
1 ATATCAAAATAAT
48137725 ATATCAAAATAAT
1 ATATCAAAATAAT
48137738 ATA
1 ATA
48137741 CTTTTTTGTT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.62, C:0.07, G:0.00, T:0.31
Consensus pattern (13 bp):
ATATCAAAATAAT
Found at i:48140591 original size:11 final size:11
Alignment explanation
Indices: 48140572--48140610 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
48140562 TTTTTTCCCT
*
48140572 TTTTTTTATTG
1 TTTTTTTATTA
48140583 TTTTTTTATTA
1 TTTTTTTATTA
* *
48140594 TTTTCTTGTTA
1 TTTTTTTATTA
48140605 TTTTTT
1 TTTTTT
48140611 ACTATTTTCC
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.10, C:0.03, G:0.05, T:0.82
Consensus pattern (11 bp):
TTTTTTTATTA
Found at i:48141269 original size:23 final size:24
Alignment explanation
Indices: 48141219--48141270 Score: 61
Period size: 23 Copynumber: 2.2 Consensus size: 24
48141209 AAAGTTACAA
* *
48141219 ATTTTCTAACTTTTTAAATATATAT
1 ATTTTCTAAC-TTTGAAAAATATAT
*
48141244 ATTTTCTAA-TTTGAAAAATATCT
1 ATTTTCTAACTTTGAAAAATATAT
48141267 ATTT
1 ATTT
48141271 ATTCTTAAAG
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
23 15 0.62
25 9 0.38
ACGTcount: A:0.37, C:0.08, G:0.02, T:0.54
Consensus pattern (24 bp):
ATTTTCTAACTTTGAAAAATATAT
Found at i:48142045 original size:27 final size:28
Alignment explanation
Indices: 48142013--48142073 Score: 72
Period size: 29 Copynumber: 2.2 Consensus size: 28
48142003 TTTAGTACTC
48142013 ATTAAACA-CTTTTATT-TAAATAAATTA
1 ATTAAA-AGCTTTTATTGTAAATAAATTA
* *
48142040 ATTAAAAGGTTTTATTGGTAAATAAATTG
1 ATTAAAAGCTTTTATT-GTAAATAAATTA
48142069 ATTAA
1 ATTAA
48142074 TAAAAGCATA
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
26 1 0.03
27 13 0.45
29 15 0.52
ACGTcount: A:0.46, C:0.03, G:0.08, T:0.43
Consensus pattern (28 bp):
ATTAAAAGCTTTTATTGTAAATAAATTA
Found at i:48143146 original size:51 final size:51
Alignment explanation
Indices: 48143075--48143175 Score: 184
Period size: 51 Copynumber: 2.0 Consensus size: 51
48143065 CTGATCACAT
*
48143075 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGAGTAGCTAAAACTACCACTTATCAC
*
48143126 TTATCACTTGTCACTGATCAGATAAGAGTAGCTAAAGCTACCACTTATCA
1 TTATCACTTGTCACTGATCAGATAAGAGTAGCTAAAACTACCACTTATCA
48143176 NNNNNNNNNN
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
51 48 1.00
ACGTcount: A:0.34, C:0.23, G:0.13, T:0.31
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGAGTAGCTAAAACTACCACTTATCAC
Found at i:48145339 original size:21 final size:21
Alignment explanation
Indices: 48145313--48145373 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
48145303 CGACATATAA
*
48145313 GTGCCTGAAACGACACACGAG
1 GTGCCTGAAACGACACACAAG
**
48145334 GTGCCTGCTACGACACACAAG
1 GTGCCTGAAACGACACACAAG
*
48145355 GTGCTTGAAATACGACACA
1 GTGCCTG-AA-ACGACACA
48145374 TAAAGTGCAT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
21 24 0.75
23 8 0.25
ACGTcount: A:0.33, C:0.28, G:0.25, T:0.15
Consensus pattern (21 bp):
GTGCCTGAAACGACACACAAG
Found at i:48145601 original size:23 final size:24
Alignment explanation
Indices: 48145575--48145669 Score: 93
Period size: 28 Copynumber: 3.6 Consensus size: 24
48145565 AAACGTCCAA
48145575 CCAAAACACACCAG-TATAATCCT
1 CCAAAACACACCAGATATAATCCT
48145598 CCAAAACACACCAGTATCATATAATCCT
1 CCAAAACACACCAG----ATATAATCCT
*
48145626 CCCAAACACACCAGAATAATATAATCCAT
1 CCAAAACACACCAG----ATATAATCC-T
48145655 CCAAAACACACCAGA
1 CCAAAACACACCAGA
48145670 ATAGCACAAA
Statistics
Matches: 62, Mismatches: 4, Indels: 10
0.82 0.05 0.13
Matches are distributed among these distances:
23 14 0.23
25 1 0.02
28 33 0.53
29 14 0.23
ACGTcount: A:0.46, C:0.34, G:0.04, T:0.16
Consensus pattern (24 bp):
CCAAAACACACCAGATATAATCCT
Found at i:48145671 original size:29 final size:28
Alignment explanation
Indices: 48145589--48145672 Score: 132
Period size: 28 Copynumber: 3.0 Consensus size: 28
48145579 AACACACCAG
* *
48145589 TATAATCCTCCAAAACACACCAGTATCA
1 TATAATCCTCCAAAACACACCAGAATAA
*
48145617 TATAATCCTCCCAAACACACCAGAATAA
1 TATAATCCTCCAAAACACACCAGAATAA
48145645 TATAATCCATCCAAAACACACCAGAATA
1 TATAATCC-TCCAAAACACACCAGAATA
48145673 GCACAAAGTG
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 33 0.65
29 18 0.35
ACGTcount: A:0.46, C:0.31, G:0.04, T:0.19
Consensus pattern (28 bp):
TATAATCCTCCAAAACACACCAGAATAA
Found at i:48146525 original size:43 final size:44
Alignment explanation
Indices: 48146466--48146556 Score: 175
Period size: 43 Copynumber: 2.1 Consensus size: 44
48146456 TAATACATTC
48146466 AATTAATGCTCTAAATAAAATTATCATTTTACCCCTAAAC-TTT
1 AATTAATGCTCTAAATAAAATTATCATTTTACCCCTAAACTTTT
48146509 AATTAATGCTCTAAATAAAATTATCATTTTACCCCTAAACTTTT
1 AATTAATGCTCTAAATAAAATTATCATTTTACCCCTAAACTTTT
48146553 AATT
1 AATT
48146557 TCTTTCATAG
Statistics
Matches: 47, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
43 40 0.85
44 7 0.15
ACGTcount: A:0.40, C:0.18, G:0.02, T:0.41
Consensus pattern (44 bp):
AATTAATGCTCTAAATAAAATTATCATTTTACCCCTAAACTTTT
Found at i:48147233 original size:51 final size:51
Alignment explanation
Indices: 48147162--48147373 Score: 361
Period size: 51 Copynumber: 4.2 Consensus size: 51
48147152 CTGATCACAT
48147162 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
* * * *
48147213 TTATCACTTGTCATTGATCAGATAAATGTAGCTAAAGCTACCACTTATCAT
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
48147264 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
* *
48147315 TTATCACTTGTCATTGATCAGATAAGTGTAGCTAAAGCTACCACTTATCAC
1 TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
*
48147366 TTGTCACT
1 TTATCACT
48147374 GATCAGAAAT
Statistics
Matches: 150, Mismatches: 11, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
51 150 1.00
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.33
Consensus pattern (51 bp):
TTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCAC
Found at i:48147277 original size:102 final size:102
Alignment explanation
Indices: 48147159--48147373 Score: 403
Period size: 102 Copynumber: 2.1 Consensus size: 102
48147149 ACACTGATCA
48147159 CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCACTTATCACTTGT
1 CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCACTTATCACTTGT
48147224 CATTGATCAGATAAATGTAGCTAAAGCTACCACTTAT
66 CATTGATCAGATAAATGTAGCTAAAGCTACCACTTAT
48147261 CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCACTTATCACTTGT
1 CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCACTTATCACTTGT
*
48147326 CATTGATCAGATAAGTGTAGCTAAAGCTACCACTTAT
66 CATTGATCAGATAAATGTAGCTAAAGCTACCACTTAT
* *
48147363 CACTTGTCACT
1 CATTTATCACT
48147374 GATCAGAAAT
Statistics
Matches: 110, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
102 110 1.00
ACGTcount: A:0.32, C:0.22, G:0.12, T:0.33
Consensus pattern (102 bp):
CATTTATCACTTGTCACTGATCAGATAAGTGTAGCTAAAACTACCACTTATCACTTATCACTTGT
CATTGATCAGATAAATGTAGCTAAAGCTACCACTTAT
Found at i:48155602 original size:13 final size:13
Alignment explanation
Indices: 48155579--48155612 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
48155569 CCCAATTTCA
*
48155579 ACACCTTATCCAC
1 ACACATTATCCAC
*
48155592 ATACATTATCCAC
1 ACACATTATCCAC
48155605 ACACATTA
1 ACACATTA
48155613 CAGCAGATCA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.38, C:0.35, G:0.00, T:0.26
Consensus pattern (13 bp):
ACACATTATCCAC
Found at i:48156610 original size:16 final size:17
Alignment explanation
Indices: 48156571--48156609 Score: 78
Period size: 17 Copynumber: 2.3 Consensus size: 17
48156561 GTGAATTACA
48156571 TAAAAATTCTGACTTTT
1 TAAAAATTCTGACTTTT
48156588 TAAAAATTCTGACTTTT
1 TAAAAATTCTGACTTTT
48156605 TAAAA
1 TAAAA
48156610 TAATTATTGG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.41, C:0.10, G:0.05, T:0.44
Consensus pattern (17 bp):
TAAAAATTCTGACTTTT
Found at i:48160499 original size:25 final size:25
Alignment explanation
Indices: 48160465--48160514 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
48160455 GACTTTCTCG
48160465 AGTCTCTAAACACAAAATATTGCCT
1 AGTCTCTAAACACAAAATATTGCCT
*
48160490 AGTCTCTAAACACAGAATATTGCCT
1 AGTCTCTAAACACAAAATATTGCCT
48160515 TACTTTGAAA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.38, C:0.24, G:0.10, T:0.28
Consensus pattern (25 bp):
AGTCTCTAAACACAAAATATTGCCT
Found at i:48161163 original size:3 final size:3
Alignment explanation
Indices: 48161150--48161215 Score: 123
Period size: 3 Copynumber: 21.7 Consensus size: 3
48161140 AAAATGCTTG
48161150 AAT AGAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
1 AAT A-AT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT
48161196 AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AA
48161216 ACAGAAAAAG
Statistics
Matches: 62, Mismatches: 0, Indels: 2
0.97 0.00 0.03
Matches are distributed among these distances:
3 59 0.95
4 3 0.05
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:48164028 original size:28 final size:28
Alignment explanation
Indices: 48163984--48164041 Score: 107
Period size: 28 Copynumber: 2.1 Consensus size: 28
48163974 ATTTTTCCGG
*
48163984 ATTAGGGTGAAATCTAATAAGGGGATCC
1 ATTAGGGTGAAACCTAATAAGGGGATCC
48164012 ATTAGGGTGAAACCTAATAAGGGGATCC
1 ATTAGGGTGAAACCTAATAAGGGGATCC
48164040 AT
1 AT
48164042 AGATCGATTT
Statistics
Matches: 29, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.36, C:0.12, G:0.28, T:0.24
Consensus pattern (28 bp):
ATTAGGGTGAAACCTAATAAGGGGATCC
Found at i:48176625 original size:44 final size:44
Alignment explanation
Indices: 48176560--48176653 Score: 102
Period size: 44 Copynumber: 2.1 Consensus size: 44
48176550 CTTTAGAGAA
* *
48176560 ATAAGACTTGTAGTTTCAATCTACTTCGCTGCAACTTCAGGGA-G
1 ATAAGACTGGTAGTTTCAATCTACTTCACTGCAACTTCA-GGATG
* * * *
48176604 ATAAGACTGGTGGCTTT-AATCTGCTTCACTGTAACTTTAGGATG
1 ATAAGACTGGTAG-TTTCAATCTACTTCACTGCAACTTCAGGATG
48176648 ATAAGA
1 ATAAGA
48176654 TTCGCTATAA
Statistics
Matches: 42, Mismatches: 6, Indels: 4
0.81 0.12 0.08
Matches are distributed among these distances:
43 3 0.07
44 36 0.86
45 3 0.07
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.33
Consensus pattern (44 bp):
ATAAGACTGGTAGTTTCAATCTACTTCACTGCAACTTCAGGATG
Found at i:48176785 original size:143 final size:143
Alignment explanation
Indices: 48176540--48177228 Score: 793
Period size: 143 Copynumber: 4.8 Consensus size: 143
48176530 TTTGATCCCC
* * * * *
48176540 TCCACCACAACTTTAGAGAAATAAGACTT-G-TAGT-TTCAATCTACTTCGCTGCAACTTCAGGG
1 TCCACTACAACTTCAGGGAAATAAGA-TTCGCT-GTCTTCAGTCTGCTTCGCTGCAACTTCAGGG
* * * *
48176602 AGATAAGACTGGTGGCTTTAATCTGCTTCACTGTAACTTTAGGATGATAAGATTCGCTATAATTT
64 AGATAAGGCTGGTGGCTTCAATCTGCTCCACTGTAACTTTAGGAAGATAAGATTCGCTATAATTT
*
48176667 GTAGCTT-TATCCTGT
129 GTAGCTTCAAT-CTGT
* * * *
48176682 TCCACTGCAA-TGTTAGGGAAATAAGATTCGCTGTCTTCAGTCTGTTTCGCTGCAACTTTAGGGA
1 TCCACTACAACT-TCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTTCGCTGCAACTTCAGGGA
* * *
48176746 GATAAGGCTGATGGCTTCAATCTACTCCACTGAAACTTTAGGAAGATAAGATTCG-TCATAATTT
65 GATAAGGCTGGTGGCTTCAATCTGCTCCACTGTAACTTTAGGAAGATAAGATTCGCT-ATAATTT
*
48176810 GTAGCTTTAATCTGT
129 GTAGCTTCAATCTGT
* * * * * * *
48176825 TCCATTACAA-TATCAGGGAAATAAGATTCGCAGTCTTTAGTCTACTCCGCTGTAGCTTCAGGGA
1 TCCACTACAACT-TCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTTCGCTGCAACTTCAGGGA
* * * * * *
48176889 GATAAGGCTGGTGGCTTCAATCTGCTCTACCGTAACTTCAAGAAGATAAGTTTCGTTATAATTTG
65 GATAAGGCTGGTGGCTTCAATCTGCTCCACTGTAACTTTAGGAAGATAAGATTCGCTATAATTTG
*
48176954 TACCTTCAATCTGT
130 TAGCTTCAATCTGT
* * *
48176968 TCCACTACAACTTCAGGGAAATAAGATTCGCTGTCTTCAGTCTAC-TCTGCTGTAACTTCTGGGA
1 TCCACTACAACTTCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTTC-GCTGCAACTTCAGGGA
* * * * *
48177032 GATAAGGCTGGTGGCTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTCTCCATGATTTG
65 GATAAGGCTGGTGGCTTCAATCTGCTCCACTGTAACTTTAGGAAGATAAGATTCGCTATAATTTG
*
48177097 TAGCTTCAATCTAT
130 TAGCTTCAATCTGT
* * * **
48177111 TCCACTAGAACTTCAGGGAAATAAGATTCGATGTCTTCAGTCTGCTCCGCTGCAACTTCAGAAAG
1 TCCACTACAACTTCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTTCGCTGCAACTTCAGGGAG
* * * *
48177176 ATAAGGCTGGTGGCTTCAATCTGCT-CAATAGCAACTTCAGGGAGATAAGATTC
66 ATAAGGCTGGTGGCTTCAATCTGCTCCACT-GTAACTTTAGGAAGATAAGATTC
48177229 AACATGGTAG
Statistics
Matches: 470, Mismatches: 66, Indels: 21
0.84 0.12 0.04
Matches are distributed among these distances:
141 3 0.01
142 29 0.06
143 433 0.92
144 5 0.01
ACGTcount: A:0.27, C:0.20, G:0.20, T:0.32
Consensus pattern (143 bp):
TCCACTACAACTTCAGGGAAATAAGATTCGCTGTCTTCAGTCTGCTTCGCTGCAACTTCAGGGAG
ATAAGGCTGGTGGCTTCAATCTGCTCCACTGTAACTTTAGGAAGATAAGATTCGCTATAATTTGT
AGCTTCAATCTGT
Found at i:48177076 original size:44 final size:44
Alignment explanation
Indices: 48176957--48177408 Score: 192
Period size: 44 Copynumber: 9.8 Consensus size: 44
48176947 TAATTTGTAC
* * * * * *
48176957 CTTCAATCTGTTCCACTACAACTTCAGGGAAATAAGATTCGCTGT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACT-GGTGG
* * ** * * *
48177002 CTTCAGTCTACTCTGCTGTAACTTCTGGGAGATAAGGCTGGTGG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGTGG
* *
48177046 CTTCAATCTGCTCCACTGCAACTTTAGGGAGATAAGATTCTCCATGATTTGTAG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA-----C-TG----GTGG
** * * * *
48177100 CTTCAATCTATTCCACTAG-AACTTCAGGGAAATAAGATTCGATGT
1 CTTCAATCTGCTCCACT-GCAACTTCAGGGAGATAAGACT-GGTGG
* * ** *
48177145 CTTCAGTCTGCTCCGCTGCAACTTCAGAAAGATAAGGCTGGTGG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGTGG
* *
48177189 CTTCAATCTGCT-CAATAGCAACTTCAGGGAGATAAGATTCAACATGGTAG
1 CTTCAATCTGCTCCACT-GCAACTTCAGGGAGATAAG-----AC-TGGTGG
* ** * * * * * ** *
48177239 ATTTGATCTGAC-CTATTGAAACTTCAGAGG-TATAAGATTTATAG
1 CTTCAATCTG-CTCCACTGCAACTTCAG-GGAGATAAGACTGGTGG
* * * * * * **
48177283 CTTTAATCTGCTCTATTGCAACTTCAGAGAGATAAGATTCGCTAT
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACT-GGTGG
* * *
48177328 CTTCAATCTGCTCCACTGCAACATCAGGGAGATAAGATTAGTGG
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGTGG
* * *
48177372 CTTCAATCTGCTCCACTACAATTTCAGAGAGATAAGA
1 CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGA
48177409 TTCGCCATGA
Statistics
Matches: 302, Mismatches: 79, Indels: 53
0.70 0.18 0.12
Matches are distributed among these distances:
43 4 0.01
44 132 0.44
45 94 0.31
48 1 0.00
49 3 0.01
50 28 0.09
51 5 0.02
54 34 0.11
55 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.20, T:0.30
Consensus pattern (44 bp):
CTTCAATCTGCTCCACTGCAACTTCAGGGAGATAAGACTGGTGG
Found at i:48177409 original size:44 final size:44
Alignment explanation
Indices: 48177091--48177410 Score: 193
Period size: 44 Copynumber: 7.1 Consensus size: 44
48177081 GATTCTCCAT
* ** * *
48177091 GATTTGTAGCTTCAATCTATTCCACTAG-AACTTCAGGGAAATAA
1 GATTAGTAGCTTCAATCTGCTCCACT-GCAACTTCAGAGAGATAA
* * * *
48177135 GATTCG-ATGTCTTCAGTCTGCTCCGCTGCAACTTCAGAAAGATAA
1 GATTAGTA-G-CTTCAATCTGCTCCACTGCAACTTCAGAGAGATAA
** * * * *
48177180 GGCTGGTGGCTTCAATCTGCT-CAATAGCAACTTCAGGGAGATAA
1 GATTAGTAGCTTCAATCTGCTCCACT-GCAACTTCAGAGAGATAA
* ** * * *
48177224 GATTCAACATGGTAGATTTGATCTGAC-CTATTGAAACTTCAGAG-GTATAA
1 GATT----A--GTAGCTTCAATCTG-CTCCACTGCAACTTCAGAGAG-ATAA
* * *
48177274 GATTTA-TAGCTTTAATCTGCTCTATTGCAACTTCAGAGAGATAA
1 GA-TTAGTAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAA
* * * *
48177318 GATTCGCTATCTTCAATCTGCTCCACTGCAACATCAGGGAGATAA
1 GATTAG-TAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAA
* * *
48177363 GATTAGTGGCTTCAATCTGCTCCACTACAATTTCAGAGAGATAA
1 GATTAGTAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAA
48177407 GATT
1 GATT
48177411 CGCCATGATG
Statistics
Matches: 212, Mismatches: 45, Indels: 38
0.72 0.15 0.13
Matches are distributed among these distances:
43 6 0.03
44 105 0.50
45 68 0.32
47 1 0.00
49 1 0.00
50 26 0.12
51 5 0.02
ACGTcount: A:0.31, C:0.20, G:0.19, T:0.30
Consensus pattern (44 bp):
GATTAGTAGCTTCAATCTGCTCCACTGCAACTTCAGAGAGATAA
Found at i:48177447 original size:183 final size:183
Alignment explanation
Indices: 48177119--48177453 Score: 397
Period size: 183 Copynumber: 1.8 Consensus size: 183
48177109 ATTCCACTAG
* * * * * *
48177119 AACTTCAGGGAAATAAGATTCGATGTCTTCAGTCTGCTCCGCTGCAACTTCAGAAAGATAAGGCT
1 AACTTCAGAGAAATAAGATTCGATATCTTCAATCTGCTCCACTGCAACATCAGAAAGATAAGACT
* * * * **
48177184 GGTGGCTTCAATCTGCTCAATAGCAACTTCAGGGAGATAAGATTCAACATGGTAGATTTGATCTG
66 AGTGGCTTCAATCTGCTCAATAGCAACTTCAGAGAGATAAGATTCAACATGATAGACTCAATCTG
*
48177249 ACCTATTGAAACTTCAGAGGTATAAGATTTATAGCTTTAATCTGCTCTATTGC
131 ACCCATTGAAACTTCAGAGGTATAAGATTTATAGCTTTAATCTGCTCTATTGC
* * ** *
48177302 AACTTCAGAGAGATAAGATTCGCTATCTTCAATCTGCTCCACTGCAACATCAGGGAGATAAGATT
1 AACTTCAGAGAAATAAGATTCGATATCTTCAATCTGCTCCACTGCAACATCAGAAAGATAAGACT
* * **
48177367 AGTGGCTTCAATCTGCTCCACTA-CAATTTCAGAGAGATAAGATTCGCCATGAT-GACCTCAATC
66 AGTGGCTTCAATCTGCT-CAATAGCAACTTCAGAGAGATAAGATTCAACATGATAGA-CTCAATC
* * *
48177430 TGTCCCACTT-CAACTTCAGGGGTA
129 TGACCCA-TTGAAACTTCAGAGGTA
48177454 CAGGATTTTT
Statistics
Matches: 124, Mismatches: 25, Indels: 6
0.80 0.16 0.04
Matches are distributed among these distances:
182 2 0.02
183 116 0.94
184 6 0.05
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.29
Consensus pattern (183 bp):
AACTTCAGAGAAATAAGATTCGATATCTTCAATCTGCTCCACTGCAACATCAGAAAGATAAGACT
AGTGGCTTCAATCTGCTCAATAGCAACTTCAGAGAGATAAGATTCAACATGATAGACTCAATCTG
ACCCATTGAAACTTCAGAGGTATAAGATTTATAGCTTTAATCTGCTCTATTGC
Found at i:48180258 original size:16 final size:18
Alignment explanation
Indices: 48180223--48180270 Score: 66
Period size: 16 Copynumber: 2.8 Consensus size: 18
48180213 TTTTTAAAAA
48180223 AATGTAATGCATATGATGC
1 AATGTAATGCA-ATGATGC
48180242 AATGTAATGC-A-GATGC
1 AATGTAATGCAATGATGC
48180258 AATGTAATG-AATG
1 AATGTAATGCAATG
48180271 CAAAAAGAGG
Statistics
Matches: 27, Mismatches: 0, Indels: 6
0.82 0.00 0.18
Matches are distributed among these distances:
16 15 0.56
17 2 0.07
19 10 0.37
ACGTcount: A:0.40, C:0.08, G:0.23, T:0.29
Consensus pattern (18 bp):
AATGTAATGCAATGATGC
Found at i:48189498 original size:42 final size:43
Alignment explanation
Indices: 48189398--48189551 Score: 159
Period size: 42 Copynumber: 3.6 Consensus size: 43
48189388 TGTGATTTCA
* * * * * * *
48189398 TGTAAGACCACGTCTGGGACGTTGGCATCAATTTGTGATTTGCG
1 TGTAAGACCATGTCTGGGACATTGGCATC-GTATATGAGTTACG
48189442 TGTAAGACCATGTCTGGGACATTGGCATCGTATATGAGTT-CG
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATATGAGTTACG
* * * *
48189484 TGTAAGACCATGTCTGGGACAGTGGTATCG-ATATGTGATTACA
1 TGTAAGACCATGTCTGGGACATTGGCATCGTATATGAG-TTACG
* *
48189527 TATAAGACCATGTCTGGGACGTTGG
1 TGTAAGACCATGTCTGGGACATTGG
48189552 AATTTTACGA
Statistics
Matches: 95, Mismatches: 13, Indels: 5
0.84 0.12 0.04
Matches are distributed among these distances:
41 6 0.06
42 32 0.34
43 30 0.32
44 27 0.28
ACGTcount: A:0.24, C:0.16, G:0.29, T:0.31
Consensus pattern (43 bp):
TGTAAGACCATGTCTGGGACATTGGCATCGTATATGAGTTACG
Found at i:48189546 original size:43 final size:43
Alignment explanation
Indices: 48189382--48189546 Score: 183
Period size: 43 Copynumber: 3.8 Consensus size: 43
48189372 ACATATGATT
* *
48189382 TCGATATGTGATTTCATGTAAGACCACGTCTGGGAC-GTTGGCA
1 TCGATATGTGAGTTCATGTAAGACCATGTCTGGGACAG-TGGCA
* * * * *
48189425 TCAATTTGTGATTTGCGTGTAAGACCATGTCTGGGACATTGGCA
1 TCGATATGTGAGTT-CATGTAAGACCATGTCTGGGACAGTGGCA
* * *
48189469 TCG-TATATGAGTTCGTGTAAGACCATGTCTGGGACAGTGGTA
1 TCGATATGTGAGTTCATGTAAGACCATGTCTGGGACAGTGGCA
*
48189511 TCGATATGTGA-TTACATATAAGACCATGTCTGGGAC
1 TCGATATGTGAGTT-CATGTAAGACCATGTCTGGGAC
48189547 GTTGGAATTT
Statistics
Matches: 104, Mismatches: 14, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
42 32 0.31
43 45 0.43
44 27 0.26
ACGTcount: A:0.25, C:0.16, G:0.27, T:0.32
Consensus pattern (43 bp):
TCGATATGTGAGTTCATGTAAGACCATGTCTGGGACAGTGGCA
Found at i:48196343 original size:21 final size:20
Alignment explanation
Indices: 48196297--48196362 Score: 53
Period size: 21 Copynumber: 3.2 Consensus size: 20
48196287 TTTACATCTC
* *
48196297 AAAAAAATTATAAAAAAAGACT
1 AAAAGAATTA-AAAAAAA-ATT
* *
48196319 -AAAGAATATATAAAAAACTT
1 AAAAGAAT-TAAAAAAAAATT
*
48196339 AAAAGTATTAAAAAAAAATT
1 AAAAGAATTAAAAAAAAATT
48196359 AAAA
1 AAAA
48196363 CTCTACACAA
Statistics
Matches: 35, Mismatches: 7, Indels: 6
0.73 0.15 0.12
Matches are distributed among these distances:
20 15 0.43
21 18 0.51
22 2 0.06
ACGTcount: A:0.71, C:0.03, G:0.05, T:0.21
Consensus pattern (20 bp):
AAAAGAATTAAAAAAAAATT
Found at i:48197923 original size:18 final size:17
Alignment explanation
Indices: 48197896--48197930 Score: 61
Period size: 18 Copynumber: 2.0 Consensus size: 17
48197886 AGGATATTAG
48197896 TTTAAAATTATATATAT
1 TTTAAAATTATATATAT
48197913 TTTAAATATTATATATAT
1 TTTAAA-ATTATATATAT
48197931 ATTTTTTAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 6 0.35
18 11 0.65
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (17 bp):
TTTAAAATTATATATAT
Found at i:48205544 original size:40 final size:39
Alignment explanation
Indices: 48205513--48205722 Score: 242
Period size: 40 Copynumber: 5.3 Consensus size: 39
48205503 GGACTAAGAT
* *
48205513 CCGAAGGCATTTGTGCGAGATACAAATTCCGGGTTAAGCC
1 CCGAAGGCATTCGTGCGAGATACAAA-TCCGGGTTAAGTC
* *
48205553 CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
* *
48205593 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * *
48205633 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTC
1 CCGAAGGCATTCGTGCGAGATA-CAAATCCGGGTTAAGTC
* * * * *
48205673 CCGAAGGCATT-GTGTGAGTTACTAAAACCGGGCTATGTC
1 CCGAAGGCATTCGTGCGAGATAC-AAATCCGGGTTAAGTC
48205712 CCGAAGGCATT
1 CCGAAGGCATT
48205723 TGAACGAGGA
Statistics
Matches: 156, Mismatches: 11, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
39 34 0.22
40 119 0.76
41 3 0.02
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.26
Consensus pattern (39 bp):
CCGAAGGCATTCGTGCGAGATACAAATCCGGGTTAAGTC
Found at i:48205676 original size:120 final size:120
Alignment explanation
Indices: 48205460--48205722 Score: 309
Period size: 120 Copynumber: 2.2 Consensus size: 120
48205450 TTGAATGCTG
* *
48205460 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
* *
48205524 TGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
66 CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACTAAA
* * * * **
48205580 TCCGGGTTAAGTCCCGAAGGCATTCGTGC-GAGTTATTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGAT-CCGAAGGCAT
* * * * * *
48205643 TCGTGCGAGTTATTAAA-TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
65 TCGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
* *
48205699 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATT
48205723 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 19, Indels: 7
0.82 0.13 0.05
Matches are distributed among these distances:
119 38 0.31
120 74 0.61
121 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.27, T:0.26
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCATTCGTGCTAAGTGAATAAATCCGGACTAAGATCCGAAGGCATT
CGTGCGAGATACAAATTCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:48205742 original size:79 final size:80
Alignment explanation
Indices: 48205461--48205757 Score: 230
Period size: 80 Copynumber: 3.7 Consensus size: 80
48205451 TGAATGCTGT
* ** * * * **
48205461 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGAATATATCCGGACTAAGAT-CCGAAGGCATT
1 CCGGGCTAAGTCCCGAAGGCATTCGAAC-GAGTGACTAAATCCGGGTTAAG-TCCCGAAGGCATT
* * *
48205524 TGTGCGAGATAC-AAATT
64 CGTGCGAGTTACTAAA-A
* * * * **
48205541 CCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGAT-ACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAG-TGACTAAATCCGGGTTAAGTCCCGAAGGCATTC
* *
48205605 GTGCGAGTTATTAAAT
65 GTGCGAGTTACTAAAA
* ** * * *
48205621 CCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATT-G
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
*
48205685 TGTGAGTTACTAAAA
66 TGCGAGTTACTAAAA
* * * *
48205700 CCGGGCTATGTCCCGAAGGCATTTGAACGAG-GAGCTATATCC-GGTTAAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGA-CTAAATCCGGGTTAAGTCCCGAAGG
48205758 TACGTGATTT
Statistics
Matches: 183, Mismatches: 28, Indels: 14
0.81 0.12 0.06
Matches are distributed among these distances:
78 15 0.08
79 47 0.26
80 110 0.60
81 11 0.06
ACGTcount: A:0.26, C:0.21, G:0.28, T:0.25
Consensus pattern (80 bp):
CCGGGCTAAGTCCCGAAGGCATTCGAACGAGTGACTAAATCCGGGTTAAGTCCCGAAGGCATTCG
TGCGAGTTACTAAAA
Found at i:48213574 original size:39 final size:39
Alignment explanation
Indices: 48213410--48213592 Score: 170
Period size: 40 Copynumber: 4.6 Consensus size: 39
48213400 TTGAATGCTG
* * * * * * *
48213410 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGAATATA
1 TCCGGGTTATGTCCCGAAGGCATTGTGC-GAGTTACTAAA
* * * *
48213450 TCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAA
1 TCCGGGTTATG-TCCCGAAGG-CATTGTGCGAGTTACTAAA
* **
48213490 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTGTTAAA
1 TCCGGGTTATGTCCCGAAGGCATT-GTGCGAGTTACTAAA
*
48213530 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTATGTCCCGAAGGCATTGTGCGAGTTACTAAA
* *
48213569 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTATGTCCCGAAGGCATT
48213593 TGAACGAGGA
Statistics
Matches: 121, Mismatches: 18, Indels: 9
0.82 0.12 0.06
Matches are distributed among these distances:
39 38 0.31
40 74 0.61
41 9 0.07
ACGTcount: A:0.25, C:0.21, G:0.28, T:0.27
Consensus pattern (39 bp):
TCCGGGTTATGTCCCGAAGGCATTGTGCGAGTTACTAAA
Found at i:48213612 original size:79 final size:80
Alignment explanation
Indices: 48213446--48213627 Score: 190
Period size: 79 Copynumber: 2.3 Consensus size: 80
48213436 GCTAAGTGAA
* * * *
48213446 TATATCCGGATTAAGAT-CCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGG
1 TATATCCGGGTTAAG-TCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGG
** ** *
48213510 CATTCGTGCGAGTTGT
65 CATTCGAACGAGGAGC
* * * * *
48213526 TAAATCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGC
1 TATATCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGC
*
48213590 ATTTGAACGAGGAGC
66 ATTCGAACGAGGAGC
*
48213605 TATATCC-GGTTAAATCCCGAAGG
1 TATATCCGGGTTAAGTCCCGAAGG
48213628 TACGTGATTT
Statistics
Matches: 83, Mismatches: 18, Indels: 4
0.79 0.17 0.04
Matches are distributed among these distances:
78 14 0.17
79 50 0.60
80 19 0.23
ACGTcount: A:0.26, C:0.20, G:0.27, T:0.26
Consensus pattern (80 bp):
TATATCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGC
ATTCGAACGAGGAGC
Found at i:48215509 original size:5 final size:5
Alignment explanation
Indices: 48215494--48215548 Score: 83
Period size: 5 Copynumber: 10.6 Consensus size: 5
48215484 AAATTGTAGT
*
48215494 ATTGAA ATTGA ATTGA ATTGA ATTGA ATTGA ATTGA ATTGT ATTGA ATTGGA
1 ATTG-A ATTGA ATTGA ATTGA ATTGA ATTGA ATTGA ATTGA ATTGA ATT-GA
48215546 ATT
1 ATT
48215549 TATGAGTTAT
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
5 37 0.80
6 9 0.20
ACGTcount: A:0.38, C:0.00, G:0.20, T:0.42
Consensus pattern (5 bp):
ATTGA
Found at i:48224871 original size:22 final size:22
Alignment explanation
Indices: 48224846--48224887 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
48224836 AGTTTGATCC
*
48224846 TCAAATTTCCAAACAAAAACTT
1 TCAAATTTCAAAACAAAAACTT
* *
48224868 TCAACTTTTAAAACAAAAAC
1 TCAAATTTCAAAACAAAAAC
48224888 ATTCCGCATT
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:0.52, C:0.21, G:0.00, T:0.26
Consensus pattern (22 bp):
TCAAATTTCAAAACAAAAACTT
Found at i:48230856 original size:20 final size:20
Alignment explanation
Indices: 48230828--48230888 Score: 56
Period size: 20 Copynumber: 3.1 Consensus size: 20
48230818 ATTTTAACTT
*
48230828 TTATGTTTATTTATATTTAA
1 TTATCTTTATTTATATTTAA
* *
48230848 TTATCTTTAATTAT-TTCTAT
1 TTATCTTTATTTATATT-TAA
*
48230868 TTATCTTT-TTGA-ATTTAA
1 TTATCTTTATTTATATTTAA
48230886 TTA
1 TTA
48230889 GGAATAGACT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
18 5 0.15
19 6 0.18
20 22 0.67
ACGTcount: A:0.28, C:0.05, G:0.03, T:0.64
Consensus pattern (20 bp):
TTATCTTTATTTATATTTAA
Found at i:48233250 original size:27 final size:27
Alignment explanation
Indices: 48233216--48233411 Score: 157
Period size: 27 Copynumber: 7.3 Consensus size: 27
48233206 CATCACATAG
**
48233216 GGGCAAAACAGTCATCCTACCATATAA
1 GGGCAAAACAGTCATTTTACCATATAA
* *
48233243 GGGCAAAATAGTCATTTTACCTTATAA
1 GGGCAAAACAGTCATTTTACCATATAA
* * *
48233270 GGGAAAAACCGTCATTTTACCACATAA
1 GGGCAAAACAGTCATTTTACCATATAA
* * *
48233297 GGGCAAAACTGTTATTTTAACATATAA
1 GGGCAAAACAGTCATTTTACCATATAA
* * * *
48233324 -GGCAAAA-ACGTTATTTTGCCACACAA
1 GGGCAAAACA-GTCATTTTACCATATAA
* * *
48233350 GGGCTAAATCA-TCATTTTATCACATAA
1 GGGC-AAAACAGTCATTTTACCATATAA
* *
48233377 GGGCAAAATCA-TCATTTTAACACATAA
1 GGGCAAAA-CAGTCATTTTACCATATAA
*
48233404 AGGCAAAA
1 GGGCAAAA
48233412 TAATTATTTT
Statistics
Matches: 137, Mismatches: 27, Indels: 10
0.79 0.16 0.06
Matches are distributed among these distances:
26 23 0.17
27 110 0.80
28 3 0.02
29 1 0.01
ACGTcount: A:0.41, C:0.19, G:0.14, T:0.26
Consensus pattern (27 bp):
GGGCAAAACAGTCATTTTACCATATAA
Found at i:48233433 original size:54 final size:54
Alignment explanation
Indices: 48233216--48233433 Score: 183
Period size: 54 Copynumber: 4.1 Consensus size: 54
48233206 CATCACATAG
** * * *
48233216 GGGC-AAAACAGTCATCCTACCATATAAGGGCAAAATAGTCATTTTACCTTATAA
1 GGGCAAAAAC-GTCATTTTACCACATAAGGGCAAAATAATCATTTTACCATATAA
* * *
48233270 GGG-AAAAACCGTCATTTTACCACATAAGGGCAAAACT-GTTATTTTAACATATAA
1 GGGCAAAAA-CGTCATTTTACCACATAAGGGCAAAA-TAATCATTTTACCATATAA
* * * * * * *
48233324 -GGCAAAAACGTTATTTTGCCACACAAGGGCTAAATCATCATTTTATCACATAA
1 GGGCAAAAACGTCATTTTACCACATAAGGGCAAAATAATCATTTTACCATATAA
* * * * * * *
48233377 GGGCAAAATCATCATTTTAACACATAAAGGCAAAATAATTATTTTACCTTACAA
1 GGGCAAAAACGTCATTTTACCACATAAGGGCAAAATAATCATTTTACCATATAA
48233431 GGG
1 GGG
48233434 TATTTCAGTC
Statistics
Matches: 130, Mismatches: 28, Indels: 12
0.76 0.16 0.07
Matches are distributed among these distances:
52 1 0.01
53 37 0.28
54 90 0.69
55 2 0.02
ACGTcount: A:0.40, C:0.18, G:0.14, T:0.28
Consensus pattern (54 bp):
GGGCAAAAACGTCATTTTACCACATAAGGGCAAAATAATCATTTTACCATATAA
Found at i:48233447 original size:27 final size:27
Alignment explanation
Indices: 48233417--48233504 Score: 86
Period size: 27 Copynumber: 3.3 Consensus size: 27
48233407 CAAAATAATT
*
48233417 ATTTTACCTTACAAGGGTATTTCAGTC
1 ATTTTACCCTACAAGGGTATTTCAGTC
*** *
48233444 ATTTTACCCTATGGGGGTATTTCAGTT
1 ATTTTACCCTACAAGGGTATTTCAGTC
*** *
48233471 ATTTTACCCTATGGGGGTATTTCGGTC
1 ATTTTACCCTACAAGGGTATTTCAGTC
*
48233498 GTTTTAC
1 ATTTTAC
48233505 AAGTAAATAA
Statistics
Matches: 53, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 53 1.00
ACGTcount: A:0.19, C:0.17, G:0.20, T:0.43
Consensus pattern (27 bp):
ATTTTACCCTACAAGGGTATTTCAGTC
Found at i:48243388 original size:3 final size:3
Alignment explanation
Indices: 48243380--48243419 Score: 71
Period size: 3 Copynumber: 13.3 Consensus size: 3
48243370 TTGTTCTTAA
*
48243380 AAT AAT AAT AAT AAT AAT AAT AAT TAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
48243420 GTTCATTACA
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (3 bp):
AAT
Found at i:48246556 original size:27 final size:27
Alignment explanation
Indices: 48246533--48246743 Score: 235
Period size: 27 Copynumber: 7.8 Consensus size: 27
48246523 TCCTACCACG
* *
48246533 TAAGGGCAAAATAGTCATTTTACCTCA
1 TAAGGGCAAAATAGTCATTTTAACACA
* ** * *
48246560 TAAGAGCAAAACCGTCATTTTACCATA
1 TAAGGGCAAAATAGTCATTTTAACACA
**
48246587 TAAGGGCAAAACCGTCATTTTAACACA
1 TAAGGGCAAAATAGTCATTTTAACACA
* *
48246614 TAAAGGCAAAACT-GTTATTTTAACACA
1 TAAGGGCAAAA-TAGTCATTTTAACACA
*
48246641 TAAGGGCAAAATAGTTATTTTAACACA
1 TAAGGGCAAAATAGTCATTTTAACACA
* *
48246668 TAAGGGCAAAATCGTCATTTTATCACA
1 TAAGGGCAAAATAGTCATTTTAACACA
* *
48246695 TGAGGACAAAATAGTCATTTTAACACA
1 TAAGGGCAAAATAGTCATTTTAACACA
* * *
48246722 TAAAGGTAAAACAGTCATTTTA
1 TAAGGGCAAAATAGTCATTTTA
48246744 TCTTACAGGG
Statistics
Matches: 158, Mismatches: 24, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
26 1 0.01
27 157 0.99
ACGTcount: A:0.42, C:0.17, G:0.14, T:0.28
Consensus pattern (27 bp):
TAAGGGCAAAATAGTCATTTTAACACA
Found at i:48246849 original size:27 final size:27
Alignment explanation
Indices: 48246782--48246851 Score: 70
Period size: 27 Copynumber: 2.6 Consensus size: 27
48246772 CCTACAAGTG
48246782 TATTTCTA-TCATTTTACCCTATGGCGA
1 TATTTC-AGTCATTTTACCCTATGGCGA
** * * *
48246809 TATTTTGGTCATTTTACCTTATGGGGG
1 TATTTCAGTCATTTTACCCTATGGCGA
*
48246836 TATTTCAGTTATTTTA
1 TATTTCAGTCATTTTA
48246852 TAAGTAAATA
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.20, C:0.14, G:0.16, T:0.50
Consensus pattern (27 bp):
TATTTCAGTCATTTTACCCTATGGCGA
Found at i:48247268 original size:24 final size:24
Alignment explanation
Indices: 48247240--48247285 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
48247230 TCAACAACCT
* *
48247240 ACTTTTTGGTTTTTCAACCTTTTG
1 ACTTTTCGGCTTTTCAACCTTTTG
*
48247264 ACTTTTCGGCTTTTCAGCCTTT
1 ACTTTTCGGCTTTTCAACCTTT
48247286 ACAGTTTCAC
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.11, C:0.22, G:0.13, T:0.54
Consensus pattern (24 bp):
ACTTTTCGGCTTTTCAACCTTTTG
Found at i:48258700 original size:99 final size:99
Alignment explanation
Indices: 48258539--48258817 Score: 425
Period size: 99 Copynumber: 2.8 Consensus size: 99
48258529 ATTAGGAATG
* * *
48258539 TGTTGGGCTAAGTAACCGGGGTGGGGTGCTTGACTGTCATCTCTCTTTGCGTCAAAATGTTCGAT
1 TGTTGGGTTGAGTAACCGGGGTGGGGTGCTTGACTGTCATCTCTCTTTGCGTCAAAAGGTTCGAT
48258604 ATATTCTTAA-AAAATATATAATAAATTAAGAGTA
66 ATATTCTTAAGAAAA-ATATAATAAATTAAGAGTA
* * * *
48258638 TGTTGGGTTGAGTAACCGGGGTGGGGTGCTTGACTGCCATCTCTCTTCGTGTTAAAAGGTTCGAT
1 TGTTGGGTTGAGTAACCGGGGTGGGGTGCTTGACTGTCATCTCTCTTTGCGTCAAAAGGTTCGAT
48258703 ATATTCTTAAGAAAAATATAATAAATTAAGAGTA
66 ATATTCTTAAGAAAAATATAATAAATTAAGAGTA
* * * * * *
48258737 TATTGGGTTGAGTAACTGGGGTGGAGTGTTTGGCTGTCATCTCTCTTTGCGTCAAAAGGTTCAAT
1 TGTTGGGTTGAGTAACCGGGGTGGGGTGCTTGACTGTCATCTCTCTTTGCGTCAAAAGGTTCGAT
48258802 ATATTCTTAAGAAAAA
66 ATATTCTTAAGAAAAA
48258818 AACCACAAAA
Statistics
Matches: 162, Mismatches: 17, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
99 158 0.98
100 4 0.02
ACGTcount: A:0.29, C:0.13, G:0.24, T:0.34
Consensus pattern (99 bp):
TGTTGGGTTGAGTAACCGGGGTGGGGTGCTTGACTGTCATCTCTCTTTGCGTCAAAAGGTTCGAT
ATATTCTTAAGAAAAATATAATAAATTAAGAGTA
Found at i:48259467 original size:4 final size:4
Alignment explanation
Indices: 48259458--48259581 Score: 248
Period size: 4 Copynumber: 31.0 Consensus size: 4
48259448 AACACAAGAC
48259458 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
48259506 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG TATG
48259554 TATG TATG TATG TATG TATG TATG TATG
1 TATG TATG TATG TATG TATG TATG TATG
48259582 AGTTAGCTAG
Statistics
Matches: 120, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 120 1.00
ACGTcount: A:0.25, C:0.00, G:0.25, T:0.50
Consensus pattern (4 bp):
TATG
Found at i:48271228 original size:16 final size:16
Alignment explanation
Indices: 48271207--48271240 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
48271197 TTAATTTCCA
*
48271207 ATTTAATTTTTAATTT
1 ATTTAATTATTAATTT
*
48271223 ATTTAATTATTGATTT
1 ATTTAATTATTAATTT
48271239 AT
1 AT
48271241 GTTGTTTCAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.32, C:0.00, G:0.03, T:0.65
Consensus pattern (16 bp):
ATTTAATTATTAATTT
Found at i:48273031 original size:32 final size:32
Alignment explanation
Indices: 48272995--48273064 Score: 131
Period size: 32 Copynumber: 2.2 Consensus size: 32
48272985 TGAAACTTTA
48272995 ATAAAATAACCAACTAATTTACTCATTTTGTG
1 ATAAAATAACCAACTAATTTACTCATTTTGTG
48273027 ATAAAATAACCAACTAATTTACTCATTTTGTG
1 ATAAAATAACCAACTAATTTACTCATTTTGTG
48273059 AGTAAA
1 A-TAAA
48273065 GAGAAAAAAA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
32 33 0.89
33 4 0.11
ACGTcount: A:0.43, C:0.14, G:0.07, T:0.36
Consensus pattern (32 bp):
ATAAAATAACCAACTAATTTACTCATTTTGTG
Found at i:48277202 original size:21 final size:22
Alignment explanation
Indices: 48277176--48277234 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
48277166 GTTTTAAGAA
*
48277176 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
48277197 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
48277219 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
48277235 GATTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:48277249 original size:26 final size:24
Alignment explanation
Indices: 48277205--48277254 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
48277195 ATTTGTTTTA
*
48277205 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
48277229 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
48277255 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:48277618 original size:54 final size:54
Alignment explanation
Indices: 48277536--48277642 Score: 214
Period size: 54 Copynumber: 2.0 Consensus size: 54
48277526 ATTTAATTAG
48277536 TTTAAACATCAGTTTGAACCAAACATATCGATATCTATACTATAGTAAACCTTA
1 TTTAAACATCAGTTTGAACCAAACATATCGATATCTATACTATAGTAAACCTTA
48277590 TTTAAACATCAGTTTGAACCAAACATATCGATATCTATACTATAGTAAACCTT
1 TTTAAACATCAGTTTGAACCAAACATATCGATATCTATACTATAGTAAACCTT
48277643 CTCTATAACA
Statistics
Matches: 53, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
54 53 1.00
ACGTcount: A:0.40, C:0.19, G:0.07, T:0.34
Consensus pattern (54 bp):
TTTAAACATCAGTTTGAACCAAACATATCGATATCTATACTATAGTAAACCTTA
Found at i:48277801 original size:24 final size:26
Alignment explanation
Indices: 48277763--48277812 Score: 77
Period size: 25 Copynumber: 2.0 Consensus size: 26
48277753 ATAGAATTCA
48277763 TATATCAAATAAAGG-AAGTGAGAAT
1 TATATCAAATAAAGGAAAGTGAGAAT
*
48277788 TATATTAAA-AAAGGAAAGTGAGAAT
1 TATATCAAATAAAGGAAAGTGAGAAT
48277813 CAAATCAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 5 0.22
25 18 0.78
ACGTcount: A:0.54, C:0.02, G:0.20, T:0.24
Consensus pattern (26 bp):
TATATCAAATAAAGGAAAGTGAGAAT
Found at i:48279582 original size:20 final size:20
Alignment explanation
Indices: 48279549--48279595 Score: 60
Period size: 21 Copynumber: 2.4 Consensus size: 20
48279539 TACAAACTCT
*
48279549 TAAAAACCAGAATTA-TAAA
1 TAAAAACCAAAATTACTAAA
48279568 TAAAAACCATAAATTACTAAA
1 TAAAAACCA-AAATTACTAAA
*
48279589 TTAAAAC
1 TAAAAAC
48279596 AATTCTCGAT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
19 9 0.38
20 5 0.21
21 10 0.42
ACGTcount: A:0.62, C:0.13, G:0.02, T:0.23
Consensus pattern (20 bp):
TAAAAACCAAAATTACTAAA
Found at i:48283170 original size:3 final size:3
Alignment explanation
Indices: 48283158--48283204 Score: 51
Period size: 3 Copynumber: 15.3 Consensus size: 3
48283148 TACTTATATA
* *
48283158 TAT TATT TAT TAT TAC TAT CAT TAT TAT TAT T-T TAT CTAT TAT TAT
1 TAT TA-T TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT -TAT TAT TAT
48283204 T
1 T
48283205 TTTTTACATA
Statistics
Matches: 37, Mismatches: 4, Indels: 6
0.79 0.09 0.13
Matches are distributed among these distances:
2 2 0.05
3 29 0.78
4 6 0.16
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (3 bp):
TAT
Found at i:48283187 original size:18 final size:18
Alignment explanation
Indices: 48283158--48283204 Score: 60
Period size: 18 Copynumber: 2.6 Consensus size: 18
48283148 TACTTATATA
48283158 TATTATTTATTATTACTATC
1 TATTA-TTATTATT-CTATC
*
48283178 -ATTATTATTATTTTATC
1 TATTATTATTATTCTATC
48283195 TATTATTATT
1 TATTATTATT
48283205 TTTTTACATA
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
17 4 0.16
18 17 0.68
19 4 0.16
ACGTcount: A:0.30, C:0.06, G:0.00, T:0.64
Consensus pattern (18 bp):
TATTATTATTATTCTATC
Found at i:48283209 original size:18 final size:17
Alignment explanation
Indices: 48283159--48283210 Score: 59
Period size: 18 Copynumber: 2.9 Consensus size: 17
48283149 ACTTATATAT
*
48283159 ATTATTTATTATTACTATC
1 ATTA-TTATTATT-TTATC
48283178 ATTATTATTATTTTATC
1 ATTATTATTATTTTATC
*
48283195 TATTATTATTTTTTTA
1 -ATTATTATTATTTTA
48283211 CATAGGTTTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
17 4 0.13
18 22 0.73
19 4 0.13
ACGTcount: A:0.29, C:0.06, G:0.00, T:0.65
Consensus pattern (17 bp):
ATTATTATTATTTTATC
Found at i:48287162 original size:19 final size:18
Alignment explanation
Indices: 48287138--48287183 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 18
48287128 GATGTCTTTT
48287138 TTTGCATTCATCCCATGCA
1 TTTGCATTCATCCCAT-CA
*
48287157 TTTGCATTTCATCGCATCA
1 TTTGCA-TTCATCCCATCA
*
48287176 TATGCATT
1 TTTGCATT
48287184 AAATGTCACA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
18 2 0.08
19 13 0.54
20 9 0.38
ACGTcount: A:0.22, C:0.26, G:0.11, T:0.41
Consensus pattern (18 bp):
TTTGCATTCATCCCATCA
Found at i:48291996 original size:25 final size:25
Alignment explanation
Indices: 48291968--48292021 Score: 63
Period size: 25 Copynumber: 2.2 Consensus size: 25
48291958 GAAGGGTCAG
* * * *
48291968 AACTGTCAGACAGCATAATAGGGGT
1 AACTATCAGACAGCAGAACAGGGGC
*
48291993 AACTATCAGGCAGCAGAACAGGGGC
1 AACTATCAGACAGCAGAACAGGGGC
48292018 AACT
1 AACT
48292022 TTAAAGAATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.37, C:0.20, G:0.28, T:0.15
Consensus pattern (25 bp):
AACTATCAGACAGCAGAACAGGGGC
Found at i:48293530 original size:28 final size:28
Alignment explanation
Indices: 48293477--48293560 Score: 132
Period size: 28 Copynumber: 3.0 Consensus size: 28
48293467 CACTTTGTGC
48293477 TATTCTGGTGTGTTTTGGATGGATTATAT
1 TATTCTGGTGTGTTTTGGA-GGATTATAT
*
48293506 TATTCTGGTGTGTTTGGGAGGATTATAT
1 TATTCTGGTGTGTTTTGGAGGATTATAT
* *
48293534 GATACTGGTGTGTTTTGGAGGATTATA
1 TATTCTGGTGTGTTTTGGAGGATTATA
48293561 CTGGTGTGTT
Statistics
Matches: 51, Mismatches: 4, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
28 33 0.65
29 18 0.35
ACGTcount: A:0.19, C:0.04, G:0.31, T:0.46
Consensus pattern (28 bp):
TATTCTGGTGTGTTTTGGAGGATTATAT
Found at i:48293572 original size:23 final size:24
Alignment explanation
Indices: 48293481--48293574 Score: 91
Period size: 28 Copynumber: 3.6 Consensus size: 24
48293471 TTGTGCTATT
48293481 CTGGTGTGTTTTGGATGGATTATATTA
1 CTGGTGTGTTTTGGA-GGA-TATA-TA
*
48293508 TTCTGGTGTGTTTGGGAGGATTATATGATA
1 --CTGGTGTGTTTTGGAGG---ATAT-ATA
48293538 CTGGTGTGTTTTGGAGGAT-TATA
1 CTGGTGTGTTTTGGAGGATATATA
48293561 CTGGTGTGTTTTGG
1 CTGGTGTGTTTTGG
48293575 TTGGACATTT
Statistics
Matches: 59, Mismatches: 2, Indels: 14
0.79 0.03 0.19
Matches are distributed among these distances:
23 17 0.29
24 1 0.02
25 2 0.03
28 18 0.31
29 14 0.24
30 5 0.08
31 2 0.03
ACGTcount: A:0.16, C:0.04, G:0.34, T:0.46
Consensus pattern (24 bp):
CTGGTGTGTTTTGGAGGATATATA
Found at i:48293802 original size:22 final size:23
Alignment explanation
Indices: 48293765--48293809 Score: 74
Period size: 22 Copynumber: 2.0 Consensus size: 23
48293755 GCTTTACTGA
48293765 TCAGGCACTTTATGTGTCATATT
1 TCAGGCACTTTATGTGTCATATT
*
48293788 TCAGGCAC-TTATGTGTCGTATT
1 TCAGGCACTTTATGTGTCATATT
48293810 CTGATTAGGT
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.20, C:0.18, G:0.20, T:0.42
Consensus pattern (23 bp):
TCAGGCACTTTATGTGTCATATT
Found at i:48295318 original size:100 final size:100
Alignment explanation
Indices: 48295145--48295346 Score: 395
Period size: 100 Copynumber: 2.0 Consensus size: 100
48295135 GAATATGATT
48295145 ATCTTTTCTAGGTATTCTATATATTCTTTTATCCTCAGAGATATGTGTGTGTGGTTGTTCAGTCT
1 ATCTTTTCTAGGTATTCTATATATTCTTTTATCCTCAGAGATATGTGTGTGTGGTTGTTCAGTCT
48295210 CTGGTGGAGTTCTGATGTTTTGAGAATTCTAGTTA
66 CTGGTGGAGTTCTGATGTTTTGAGAATTCTAGTTA
*
48295245 ATCTTTTCTGGGTATTCTATATATTCTTTTATCCTCAGAGATATGTGTGTGTGGTTGTTCAGTCT
1 ATCTTTTCTAGGTATTCTATATATTCTTTTATCCTCAGAGATATGTGTGTGTGGTTGTTCAGTCT
48295310 CTGGTGGAGTTCTGATGTTTTGAGAATTCTAGTTA
66 CTGGTGGAGTTCTGATGTTTTGAGAATTCTAGTTA
48295345 AT
1 AT
48295347 TATGATGTTA
Statistics
Matches: 101, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 101 1.00
ACGTcount: A:0.19, C:0.12, G:0.22, T:0.47
Consensus pattern (100 bp):
ATCTTTTCTAGGTATTCTATATATTCTTTTATCCTCAGAGATATGTGTGTGTGGTTGTTCAGTCT
CTGGTGGAGTTCTGATGTTTTGAGAATTCTAGTTA
Found at i:48302207 original size:52 final size:52
Alignment explanation
Indices: 48302151--48302250 Score: 121
Period size: 52 Copynumber: 1.9 Consensus size: 52
48302141 TACTTCACCC
* * * *
48302151 AAAAAGGGGAAGGCAAATG-CGAAAACTCGCAAAGGGCACTTTGAGACCTAAAA
1 AAAAAGGAG-AGGCAAA-GACGAAAACCCGCAAAAGGCACCTTGAGACCTAAAA
* *
48302204 AAAAAGGAGAGGCCAAGACGAAAACCCGCAAAAGGCGCCTTGAGACC
1 AAAAAGGAGAGGCAAAGACGAAAACCCGCAAAAGGCACCTTGAGACC
48302251 AAAGGGATCT
Statistics
Matches: 40, Mismatches: 6, Indels: 3
0.82 0.12 0.06
Matches are distributed among these distances:
51 1 0.03
52 31 0.77
53 8 0.20
ACGTcount: A:0.44, C:0.21, G:0.27, T:0.08
Consensus pattern (52 bp):
AAAAAGGAGAGGCAAAGACGAAAACCCGCAAAAGGCACCTTGAGACCTAAAA
Found at i:48303120 original size:44 final size:45
Alignment explanation
Indices: 48303050--48303450 Score: 206
Period size: 44 Copynumber: 8.8 Consensus size: 45
48303040 TGAATCCACA
* * * *
48303050 AATCTCATCTCCCTGAAGTAGCAGTGGAGCAGATTGAAGTTGTA-G
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGATG-ACG
* * *
48303095 -ATCTTATCTCCTTGAAGTTGTAGTGGAGAAGATCGAAGATGACG
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGATGACG
* * * ** *
48303139 AATCTTATCTTCTTAAAGTTGCAATGGAGCAGATTGAAG-CCACT
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGATGACG
** * * * * * *
48303183 AGCCTTATCTCGTTAAAGTTACAGCGGAGTAGACTGAAGAT-AGCG
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGATGA-CG
* * * * *
48303228 AATCTCATTTCCTTGAAGTTGTAGTGGAACAGATTAAAGCTACAAATTATGACG
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATT---G-----AA-GATGACG
* ** *
48303282 AATCTTATCTTCC-TGAAGTTGCAGTGGAGCAGACTGAAG-CCACC
1 AATCTTATC-TCCTTGAAGTTGCAGTGGAGCAGATTGAAGATGACG
** * * * * *
48303326 AGCCTTATCTCCCTGAAGTTGTAGTAGAGCAGACTGAAGAT-AGTG
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGATGA-CG
* * * * * *
48303371 AGTATTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAGAT-ACA
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGATGACG
* * * *
48303415 AATCTCATCTCCCTAAAGCTGCAGTGGAGCAGATTG
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTG
48303451 TAACCATTAA
Statistics
Matches: 266, Mismatches: 72, Indels: 37
0.71 0.19 0.10
Matches are distributed among these distances:
43 4 0.02
44 131 0.49
45 91 0.34
46 2 0.01
48 1 0.00
51 1 0.00
53 2 0.01
54 30 0.11
55 4 0.02
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (45 bp):
AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATTGAAGATGACG
Found at i:48303397 original size:143 final size:143
Alignment explanation
Indices: 48303133--48303417 Score: 345
Period size: 143 Copynumber: 2.0 Consensus size: 143
48303123 AAGATCGAAG
* * * **
48303133 ATGACGAATCTTATCTTCTTAAAGTTGCAATGGAGCAGATTGAAGCCACTAGCCTTATCTCGTTA
1 ATGACGAATCTTATCTTCCTAAAGTTGCAATGGAGCAGACTGAAGCCACCAGCCTTATCTCCCTA
* * * * * **
48303198 AAGTTACAGCGGAGTAGACTGAAGATAGCGAATCTCATTTCCTTGAAGTTGTAGTGGAACAGATT
66 AAGTTACAGCAGAGCAGACTGAAGATAGCGAATATCATCTCCCTGAAGTTACAGTGGAACAGATT
*
48303263 AAAGCTACAAATT
131 AAAGATACAAATT
* * *
48303276 ATGACGAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGACTGAAGCCACCAGCCTTATCTCCCTG
1 ATGACGAATCTTATCTTCCTAAAGTTGCAATGGAGCAGACTGAAGCCACCAGCCTTATCTCCCTA
** * * * * **
48303341 AAGTTGTAGTAGAGCAGACTGAAGATAGTGAGTATTATCTCCCTGAAGTTACAGTGGAGTAGATT
66 AAGTTACAGCAGAGCAGACTGAAGATAGCGAATATCATCTCCCTGAAGTTACAGTGGAACAGATT
*
48303406 GAAGATACAAAT
131 AAAGATACAAAT
48303418 CTCATCTCCC
Statistics
Matches: 117, Mismatches: 25, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
143 117 1.00
ACGTcount: A:0.32, C:0.18, G:0.22, T:0.28
Consensus pattern (143 bp):
ATGACGAATCTTATCTTCCTAAAGTTGCAATGGAGCAGACTGAAGCCACCAGCCTTATCTCCCTA
AAGTTACAGCAGAGCAGACTGAAGATAGCGAATATCATCTCCCTGAAGTTACAGTGGAACAGATT
AAAGATACAAATT
Found at i:48303535 original size:45 final size:44
Alignment explanation
Indices: 48303281--48303535 Score: 174
Period size: 44 Copynumber: 5.8 Consensus size: 44
48303271 AAATTATGAC
* * * ** *
48303281 GAATCTTATCTTCCTGAAGTTGCAGTGGAGCAGACTGAAGCCAC
1 GAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGACTGAAGATAT
* ** * * * *
48303325 CAGCCTTATCTCCCTGAAGTTGTAGTAGAGCAGACTGAAGATAGT
1 GAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGACTGAAGATA-T
* * * * * *
48303370 GAGTATTATCTCCCTGAAGTTACAGTGGAGTAGATTGAAGATAC
1 GAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGACTGAAGATAT
* * * * * *
48303414 AAATCTCATCTCCCTAAAGCTGCAGTGGAGCAGATTGTAACCAT-T
1 GAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGACTG-AA-GATAT
* * * *
48303459 -AACCTCATCTCCCTAAAGTT-CAGTGAAATAGACTGAAGATAGT
1 GAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGACTGAAGATA-T
* *
48303502 GAATCTTATTTCCCTAAAGTTGCAGTGGAATAGA
1 GAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGA
48303536 TTAAAGCTAC
Statistics
Matches: 165, Mismatches: 39, Indels: 13
0.76 0.18 0.06
Matches are distributed among these distances:
41 2 0.01
42 2 0.01
43 12 0.07
44 99 0.60
45 48 0.29
46 2 0.01
ACGTcount: A:0.31, C:0.20, G:0.22, T:0.27
Consensus pattern (44 bp):
GAATCTTATCTCCCTAAAGTTGCAGTGGAGTAGACTGAAGATAT
Found at i:48303537 original size:88 final size:88
Alignment explanation
Indices: 48303377--48303537 Score: 207
Period size: 88 Copynumber: 1.8 Consensus size: 88
48303367 AGTGAGTATT
* * * *
48303377 ATCTCCCTGAAGTTACAGTGGAGTAGATTGAAGATACAAATCTCATCTCCCTAAAGCTGCAGTGG
1 ATCTCCCTAAAGTTACAGTGAAATAGACTGAAGATACAAATCTCATCTCCCTAAAGCTGCAGTGG
*
48303442 AGCAGATTGTAACCATTAACCTC
66 AACAGATTGTAACCATTAACCTC
** * * *
48303465 ATCTCCCTAAAGTT-CAGTGAAATAGACTGAAGATAGTGAATCTTATTTCCCTAAAGTTGCAGTG
1 ATCTCCCTAAAGTTACAGTGAAATAGACTGAAGATA-CAAATCTCATCTCCCTAAAGCTGCAGTG
*
48303529 GAATAGATT
65 GAACAGATT
48303538 AAAGCTACAA
Statistics
Matches: 61, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
87 18 0.30
88 43 0.70
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.29
Consensus pattern (88 bp):
ATCTCCCTAAAGTTACAGTGAAATAGACTGAAGATACAAATCTCATCTCCCTAAAGCTGCAGTGG
AACAGATTGTAACCATTAACCTC
Found at i:48305250 original size:15 final size:14
Alignment explanation
Indices: 48305219--48305254 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
48305209 ATGAACCTTC
*
48305219 ATTTTATTTTATTT
1 ATTTTATCTTATTT
48305233 ATTTTATCTTACTTT
1 ATTTTATCTTA-TTT
48305248 ATTTTAT
1 ATTTTAT
48305255 TCTTGGCCTT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.22, C:0.06, G:0.00, T:0.72
Consensus pattern (14 bp):
ATTTTATCTTATTT
Found at i:48306441 original size:21 final size:21
Alignment explanation
Indices: 48306417--48306466 Score: 73
Period size: 21 Copynumber: 2.4 Consensus size: 21
48306407 AATAGTCCAT
* *
48306417 TAACAAAATTACAGGCCCAAA
1 TAACAAAAGTACAAGCCCAAA
48306438 TAACAAAAGTACAAGCCCAAA
1 TAACAAAAGTACAAGCCCAAA
*
48306459 AAACAAAA
1 TAACAAAA
48306467 AAGGCCCATG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.60, C:0.22, G:0.08, T:0.10
Consensus pattern (21 bp):
TAACAAAAGTACAAGCCCAAA
Found at i:48307782 original size:3 final size:3
Alignment explanation
Indices: 48307774--48307853 Score: 60
Period size: 3 Copynumber: 27.0 Consensus size: 3
48307764 ACATTTTGTC
* * * *
48307774 ATT ATT ATT ATT ATT CTC ATT ATT ATT ATT GTT ATTT ATT TTT CATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT A-TT ATT ATT -ATT
*
48307821 ATT ATTT ATT -TT TTT ATT -TT -TT A-T ATT ATT ATT
1 ATT A-TT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
48307854 TAATTAGTAT
Statistics
Matches: 62, Mismatches: 9, Indels: 12
0.75 0.11 0.14
Matches are distributed among these distances:
2 8 0.13
3 46 0.74
4 8 0.13
ACGTcount: A:0.25, C:0.04, G:0.01, T:0.70
Consensus pattern (3 bp):
ATT
Found at i:48308872 original size:47 final size:48
Alignment explanation
Indices: 48308820--48308925 Score: 112
Period size: 47 Copynumber: 2.2 Consensus size: 48
48308810 GCATATGATT
48308820 TATAATTTAATTA-TAAAAAAATTCAAAGATA-AAATTATTATA-ATAAA
1 TATAATTTAATTATTAAAAAAATT-AAAGATATAAATTA-TATAGATAAA
* * * * *
48308867 TATAA-TTGATGATTAAAAAAATTAAATATATATATTATATAGATAAT
1 TATAATTTAATTATTAAAAAAATTAAAGATATAAATTATATAGATAAA
*
48308914 TTTAATTTAATT
1 TATAATTTAATT
48308926 GTCGATAATC
Statistics
Matches: 47, Mismatches: 8, Indels: 7
0.76 0.13 0.11
Matches are distributed among these distances:
46 15 0.32
47 28 0.60
48 4 0.09
ACGTcount: A:0.54, C:0.01, G:0.04, T:0.42
Consensus pattern (48 bp):
TATAATTTAATTATTAAAAAAATTAAAGATATAAATTATATAGATAAA
Found at i:48317368 original size:44 final size:44
Alignment explanation
Indices: 48317304--48317420 Score: 134
Period size: 44 Copynumber: 2.7 Consensus size: 44
48317294 TAGGATCCGA
* *
48317304 TATGTTTTATCATGTAAGACCACGTCTGGGACGTTAGCATCG-ACT
1 TATGTTTTA-CGTGTAAGACCACGTCTAGGACGTTAGCATCGTA-T
* *
48317349 TATGTTTTACGTGTAAGACCACTTCTAGGACGTTGGCATCGTAT
1 TATGTTTTACGTGTAAGACCACGTCTAGGACGTTAGCATCGTAT
*
48317393 T-TGATTT-CGTGTAAGACC-CTGTCTAGGA
1 TATGTTTTACGTGTAAGACCAC-GTCTAGGA
48317421 TAGTGGCAAC
Statistics
Matches: 64, Mismatches: 6, Indels: 7
0.83 0.08 0.09
Matches are distributed among these distances:
41 1 0.02
42 18 0.28
43 5 0.08
44 30 0.47
45 10 0.16
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (44 bp):
TATGTTTTACGTGTAAGACCACGTCTAGGACGTTAGCATCGTAT
Found at i:48317418 original size:42 final size:43
Alignment explanation
Indices: 48317316--48317477 Score: 138
Period size: 43 Copynumber: 3.8 Consensus size: 43
48317306 TGTTTTATCA
* *
48317316 TGTAAGACCAC-GTCTGGGACGTTAGCATCG-ACTTATGTTTTACG
1 TGTAAGACCACTGTCTAGGACGTTAGCATCGTA-TT-TGATTT-CG
*
48317360 TGTAAGACCACT-TCTAGGACGTTGGCATCGTATTTGATTTCG
1 TGTAAGACCACTGTCTAGGACGTTAGCATCGTATTTGATTTCG
* * * * *
48317402 TGTAAGACC-CTGTCTAGGATAG-TGGCAACGATATTTGATTACA
1 TGTAAGACCACTGTCTAGGA-CGTTAGCATCG-TATTTGATTTCG
* * *
48317445 TGTAAGACCA-TGTCTGGGATGTTAGCATTGTAT
1 TGTAAGACCACTGTCTAGGACGTTAGCATCGTAT
48317478 GAGCTTTCTG
Statistics
Matches: 99, Mismatches: 12, Indels: 16
0.78 0.09 0.13
Matches are distributed among these distances:
41 2 0.02
42 29 0.29
43 38 0.38
44 29 0.29
45 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (43 bp):
TGTAAGACCACTGTCTAGGACGTTAGCATCGTATTTGATTTCG
Found at i:48322464 original size:23 final size:25
Alignment explanation
Indices: 48322433--48322483 Score: 70
Period size: 23 Copynumber: 2.1 Consensus size: 25
48322423 ATAAAAATTT
*
48322433 TAAAAAATAATAATAATGA-AA-AA
1 TAAAAAATAACAATAATGAGAATAA
*
48322456 TAAATAATAACAATAATGAGAATAA
1 TAAAAAATAACAATAATGAGAATAA
48322481 TAA
1 TAA
48322484 GAAGAACCAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
23 17 0.71
24 2 0.08
25 5 0.21
ACGTcount: A:0.69, C:0.02, G:0.06, T:0.24
Consensus pattern (25 bp):
TAAAAAATAACAATAATGAGAATAA
Found at i:48324144 original size:89 final size:90
Alignment explanation
Indices: 48324024--48324191 Score: 214
Period size: 89 Copynumber: 1.9 Consensus size: 90
48324014 GAATTGTAAT
* * * * * ***
48324024 TTCAATCTACTCCGCTCCAACCTCAGAGAGATGAGATTCA-TATCTTCAATTTGCTCTGCTGCAA
1 TTCAATCTACTCCACTACAACCTCAGAGAGATAAGATTCATTATCTTCAATCTACTCCAATGCAA
*
48324088 CTTCAGGGAGATAATATTCACTACC
66 CTTCAGGGAAATAATATTCACTACC
* *
48324113 TTCAATCTACTCCACTACAACTTCATG-GAGATAAGATTTATTATCTTCAATCTACTCCAATGCA
1 TTCAATCTACTCCACTACAACCTCA-GAGAGATAAGATTCATTATCTTCAATCTACTCCAATGCA
48324177 ACTTCAGGGAAATAA
65 ACTTCAGGGAAATAA
48324192 GATTTGTGAC
Statistics
Matches: 66, Mismatches: 11, Indels: 3
0.82 0.14 0.04
Matches are distributed among these distances:
89 33 0.50
90 33 0.50
ACGTcount: A:0.32, C:0.25, G:0.12, T:0.31
Consensus pattern (90 bp):
TTCAATCTACTCCACTACAACCTCAGAGAGATAAGATTCATTATCTTCAATCTACTCCAATGCAA
CTTCAGGGAAATAATATTCACTACC
Found at i:48324424 original size:96 final size:97
Alignment explanation
Indices: 48324297--48324525 Score: 286
Period size: 96 Copynumber: 2.4 Consensus size: 97
48324287 GGTTCACTTC
* * *
48324297 AATCTGTTCCACTGCAACTTCAAGAATATAAGATTTGTAACTTGAAGCTTTAA-TTTGTTCCACT
1 AATCTATTCCACTACAACTTCAAGAAGATAAGATTTGTAACTTGAAGCTTTAATTTTGTTCCACT
48324361 GCAACATTAGGGAAATAAGATTTGCTATATTT
66 GCAACATTAGGGAAATAAGATTTGCTATATTT
* * *
48324393 AATCTATTCCACTATAACTTC-AGAGAGATAAGATTTGTAACTTGTAGCTTTAATTTTTTTCCAC
1 AATCTATTCCACTACAACTTCAAGA-AGATAAGATTTGTAACTTGAAGCTTTAATTTTGTTCCAC
* ** *
48324457 TGCAACTTTAGGGAAATAAGATTTG-TAGCTTC
65 TGCAACATTAGGGAAATAAGATTTGCTATATTT
** * *
48324489 AACTCGCTT-CACTGCAACTTCAGGAAGATAAGATTTG
1 AA-TCTATTCCACTACAACTTCAAGAAGATAAGATTTG
48324526 CTATCTACAA
Statistics
Matches: 114, Mismatches: 15, Indels: 8
0.83 0.11 0.06
Matches are distributed among these distances:
95 3 0.03
96 72 0.63
97 39 0.34
ACGTcount: A:0.32, C:0.17, G:0.15, T:0.36
Consensus pattern (97 bp):
AATCTATTCCACTACAACTTCAAGAAGATAAGATTTGTAACTTGAAGCTTTAATTTTGTTCCACT
GCAACATTAGGGAAATAAGATTTGCTATATTT
Found at i:48324476 original size:52 final size:51
Alignment explanation
Indices: 48324303--48324483 Score: 180
Period size: 52 Copynumber: 3.6 Consensus size: 51
48324293 CTTCAATCTG
* *
48324303 TTCCACTGCAACTTCA-AGAATATAAGATTTGTAACTTGAAGCTTTAATTTG
1 TTCCACTGCAACTTCAGAGAA-ATAAGATTTGTAACTTGTAGCTTTAATTTA
* * *
48324354 TTCCACTGCAACATT-AGGGAAATAAGATTTG---C-TATA--TTTAATCTA
1 TTCCACTGCAAC-TTCAGAGAAATAAGATTTGTAACTTGTAGCTTTAATTTA
** * *
48324399 TTCCACTATAACTTCAGAGAGATAAGATTTGTAACTTGTAGCTTTAATTTTT
1 TTCCACTGCAACTTCAGAGAAATAAGATTTGTAACTTGTAGCTTTAA-TTTA
* *
48324451 TTCCACTGCAACTTTAGGGAAATAAGATTTGTA
1 TTCCACTGCAACTTCAGAGAAATAAGATTTGTA
48324484 GCTTCAACTC
Statistics
Matches: 103, Mismatches: 17, Indels: 19
0.74 0.12 0.14
Matches are distributed among these distances:
44 2 0.02
45 31 0.30
47 2 0.02
48 2 0.02
49 3 0.03
51 28 0.27
52 35 0.34
ACGTcount: A:0.33, C:0.15, G:0.14, T:0.38
Consensus pattern (51 bp):
TTCCACTGCAACTTCAGAGAAATAAGATTTGTAACTTGTAGCTTTAATTTA
Found at i:48324607 original size:89 final size:89
Alignment explanation
Indices: 48324452--48325064 Score: 538
Period size: 89 Copynumber: 6.8 Consensus size: 89
48324442 TTAATTTTTT
* * * * * * *
48324452 TCCACTGCAACTTTAGGGAAATAAGATTTGTAGCTTCAA-CTCGCTTCACTGCAACTTCAGGAAG
1 TCCACTGCAACTTCAGGGAGATAAGATTTTTAACTTTAATCT-GCTCCACTGCAACTTCAGGGAG
*
48324516 ATAAGATTTGCTATCTACAATCTGC
65 ATAAGATTTGCTATCTTCAATCTGC
* * * *
48324541 TCCACTGCAACTTCAGGGAGATATGGTTTTTAACTTTAATCTACTTCACTGCAACTTCAGGGAGA
1 TCCACTGCAACTTCAGGGAGATAAGATTTTTAACTTTAATCTGCTCCACTGCAACTTCAGGGAGA
** *
48324606 TAAGATTCACCACAATGACTTCAAT-T-C
66 TAAGATT---TGCTAT--CTTCAATCTGC
* * * * * *
48324633 GTCCCACTGCAACTTCAGGG-GTATAGGATTTGTAACTTCAATCTGCTCCACAGCAACTTTAGAG
1 -T-CCACTGCAACTTCAGGGAG-ATAAGATTTTTAACTTTAATCTGCTCCACTGCAACTTCAGGG
* *
48324697 AGATAAGATTTGCTATCTTTATTCTGC
63 AGATAAGATTTGCTATCTTCAATCTGC
* * * * * * *
48324724 TCCACTACAACTTCAGAGAGATAAGATTTGTAACTTCAATCTGCTCCACTGTAATTTTAGGGAGA
1 TCCACTGCAACTTCAGGGAGATAAGATTTTTAACTTTAATCTGCTCCACTGCAACTTCAGGGAGA
** *
48324789 TAAGATTTG-TGGCTTTAATCTGC
66 TAAGATTTGCTATCTTCAATCTGC
* ** ** *
48324812 TCCATTGCAACTTCAAAGAGATAAGATTCACT-ATTTTCAATCTGCTCCACTGCAACTTCAGGGA
1 TCCACTGCAACTTCAGGGAGATAAGATT-TTTAACTTT-AATCTGCTCCACTGCAACTTCAGGGA
* *
48324876 GATAAGATTTACTATCTTCAATCTAC
64 GATAAGATTTGCTATCTTCAATCTGC
* * * * *
48324902 TCGACTACAACTTCAGGGGGATAAGATTTGCAACTTGTATCTTTAATCTGTTCCACTGCAACTTC
1 TCCACTGCAACTTCAGGGAGATAAGA-TT-----TT-TAACTTTAATCTGCTCCACTGCAACTTC
* *
48324967 AGGGAAATAAGATTTG-TAACTTCAATCTGC
59 AGGGAGATAAGATTTGCTATCTTCAATCTGC
* ** * *
48324997 TCCACTGCAACTTTAGGGAGATAAGATTTTTGGCTTTAATCTGCTCCACTACAACTTTAGGGAGA
1 TCCACTGCAACTTCAGGGAGATAAGATTTTTAACTTTAATCTGCTCCACTGCAACTTCAGGGAGA
48325062 TAA
66 TAA
48325065 TATTCTTCAT
Statistics
Matches: 425, Mismatches: 77, Indels: 45
0.78 0.14 0.08
Matches are distributed among these distances:
88 71 0.17
89 165 0.39
90 35 0.08
91 6 0.01
92 4 0.01
93 3 0.01
94 68 0.16
95 35 0.08
96 35 0.08
97 3 0.01
ACGTcount: A:0.30, C:0.21, G:0.17, T:0.32
Consensus pattern (89 bp):
TCCACTGCAACTTCAGGGAGATAAGATTTTTAACTTTAATCTGCTCCACTGCAACTTCAGGGAGA
TAAGATTTGCTATCTTCAATCTGC
Found at i:48324703 original size:183 final size:183
Alignment explanation
Indices: 48324453--48324795 Score: 456
Period size: 183 Copynumber: 1.9 Consensus size: 183
48324443 TAATTTTTTT
* * * *
48324453 CCACTGCAACTTTAGGGAAATAAGATTTGTAGCTTCAACTCGCTTCACTGCAACTTCAGGAAGAT
1 CCACTGCAACTTCAGGGAAATAAGATTTGTAACTTCAACTCGCTCCACAGCAACTTCAGGAAGAT
* * * * * *
48324518 AAGATTTGCTATCTACAATCTGCTCCACTGCAACTTCAGGGAGATATGGTTTTTAACTTTAATCT
66 AAGATTTGCTATCTACAATCTGCTCCACTACAACTTCAGAGAGATAAGATTTGTAACTTCAATCT
*
48324583 ACTTCACTGCAACTTCAGGGAGATAAGATTCACCACAATGACTTCAATTCGTC
131 ACTCCACTGCAACTTCAGGGAGATAAGATTCACCACAATGACTTCAATTCGTC
** * *
48324636 CCACTGCAACTTCAGGGGTATAGGATTTGTAACTTCAA-TCTGCTCCACAGCAACTTTA-GAGAG
1 CCACTGCAACTTCAGGGAAATAAGATTTGTAACTTCAACTC-GCTCCACAGCAACTTCAGGA-AG
** *
48324699 ATAAGATTTGCTATCTTTATTCTGCTCCACTACAACTTCAGAGAGATAAGATTTGTAACTTCAAT
64 ATAAGATTTGCTATCTACAATCTGCTCCACTACAACTTCAGAGAGATAAGATTTGTAACTTCAAT
* * * *
48324764 CTGCTCCACTGTAATTTTAGGGAGATAAGATT
129 CTACTCCACTGCAACTTCAGGGAGATAAGATT
48324796 TGTGGCTTTA
Statistics
Matches: 136, Mismatches: 22, Indels: 4
0.84 0.14 0.02
Matches are distributed among these distances:
182 4 0.03
183 132 0.97
ACGTcount: A:0.30, C:0.22, G:0.17, T:0.31
Consensus pattern (183 bp):
CCACTGCAACTTCAGGGAAATAAGATTTGTAACTTCAACTCGCTCCACAGCAACTTCAGGAAGAT
AAGATTTGCTATCTACAATCTGCTCCACTACAACTTCAGAGAGATAAGATTTGTAACTTCAATCT
ACTCCACTGCAACTTCAGGGAGATAAGATTCACCACAATGACTTCAATTCGTC
Found at i:48325015 original size:44 final size:44
Alignment explanation
Indices: 48323991--48325064 Score: 663
Period size: 44 Copynumber: 23.5 Consensus size: 44
48323981 CAATTCTAAC
* * * * * *
48323991 CCACTGGAACTTCAGGGATATAGGAATTGTAATTTCAATCTACT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAATCTGCT
* * * * * ** * *
48324035 CCGCTCCAACCTCAGAGAGATGAGATTCATATCTTCAATTTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAATCTGCT
** * ** * *
48324079 CTGCTGCAACTTCAGGGAGATAATATTCACTACCTTCAATCTACT
1 CCACTGCAACTTCAGGGAGATAAGATT-TGTAACTTCAATCTGCT
* * * * *
48324124 CCACTACAACTTCATGGAGATAAGATTTATTATCTTCAATCTACT
1 CCACTGCAACTTCAGGGAGATAAGATTT-GTAACTTCAATCTGCT
* * * **
48324169 CCAATGCAACTTCAGGGAAATAAGATTTGTGACTTGCAGCTTTTATCTATT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAACTT-CA------ATCTGCT
* * *
48324220 CCACTGCAACTTCAGGGAAATAAGATTTGTAGCTTCAACCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAATCTGCT
* ** * * *
48324264 CCACAGCAACTTCAAAGAGATAAG--GT-TCACTTCAATCTGTT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAATCTGCT
* * * * *
48324305 CCACTGCAACTTCAAGAATATAAGATTTGTAACTTGAAGCTTTAATTTGTT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAACTT----C---AATCTGCT
* * **
48324356 CCACTGCAACATT-AGGGAAATAAGATTTGCTATA-TTTAATCTATT
1 CCACTGCAAC-TTCAGGGAGATAAGATTTG-TA-ACTTCAATCTGCT
** * * **
48324401 CCACTATAACTTCAGAGAGATAAGATTTGTAACTTGTAGCTTTAATTTTTTT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAAC-T-T--C---AA-TCTGCT
* * *
48324453 CCACTGCAACTTTAGGGAAATAAGATTTGTAGCTTCAA-CTCGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAATCT-GCT
* * * *
48324497 TCACTGCAACTTCAGGAAGATAAGATTTGCTATCTACAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTG-TAACTTCAATCTGCT
* * * * *
48324542 CCACTGCAACTTCAGGGAGATATGGTTTTTAACTTTAATCTACT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAATCTGCT
* ** *
48324586 TCACTGCAACTTCAGGGAGATAAGATTCACCACAATGACTTCAAT-T-CGT
1 CCACTGCAACTTCAGGGAGATAAGATT------TGTAACTTCAATCTGC-T
*
48324635 CCCACTGCAACTTCAGGG-GTATAGGATTTGTAACTTCAATCTGCT
1 -CCACTGCAACTTCAGGGAG-ATAAGATTTGTAACTTCAATCTGCT
* * * * * *
48324680 CCACAGCAACTTTAGAGAGATAAGATTTGCTATCTTTATTCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTG-TAACTTCAATCTGCT
* *
48324725 CCACTACAACTTCAGAGAGATAAGATTTGTAACTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAATCTGCT
* * * ** *
48324769 CCACTGTAATTTTAGGGAGATAAGATTTGTGGCTTTAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAATCTGCT
* ** ** **
48324813 CCATTGCAACTTCAAAGAGATAAGATTCACTATTTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATT-TGTAACTTCAATCTGCT
* * *
48324858 CCACTGCAACTTCAGGGAGATAAGATTTACTATCTTCAATCTACT
1 CCACTGCAACTTCAGGGAGATAAGATTT-GTAACTTCAATCTGCT
* * * * *
48324903 CGACTACAACTTCAGGGGGATAAGATTTGCAACTTGTATCTTTAATCTGTT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAAC---T-TC---AATCTGCT
*
48324954 CCACTGCAACTTCAGGGAAATAAGATTTGTAACTTCAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAATCTGCT
* * ** *
48324998 CCACTGCAACTTTAGGGAGATAAGATTTTTGGCTTTAATCTGCT
1 CCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAATCTGCT
* *
48325042 CCACTACAACTTTAGGGAGATAA
1 CCACTGCAACTTCAGGGAGATAA
48325065 TATTCTTCAT
Statistics
Matches: 800, Mismatches: 173, Indels: 114
0.74 0.16 0.10
Matches are distributed among these distances:
41 31 0.04
42 1 0.00
43 3 0.00
44 318 0.40
45 254 0.32
46 4 0.00
47 3 0.00
48 6 0.01
49 3 0.00
50 34 0.04
51 105 0.13
52 37 0.05
53 1 0.00
ACGTcount: A:0.30, C:0.21, G:0.16, T:0.33
Consensus pattern (44 bp):
CCACTGCAACTTCAGGGAGATAAGATTTGTAACTTCAATCTGCT
Found at i:48327950 original size:40 final size:40
Alignment explanation
Indices: 48327906--48328013 Score: 146
Period size: 40 Copynumber: 2.7 Consensus size: 40
48327896 CATAAAACTG
*
48327906 AAGCTAT-TCCAATTCGCACACTAAGTGCTGTATATAGCCA
1 AAGCTATCTCCAA-GCGCACACTAAGTGCTGTATATAGCCA
* *
48327946 AAGCTATCTCGAAGCGCACACTAAGTGCTGTATATAGCCG
1 AAGCTATCTCCAAGCGCACACTAAGTGCTGTATATAGCCA
* * *
48327986 AAGCTGTCTCGAAGCACACACTAAGTGC
1 AAGCTATCTCCAAGCGCACACTAAGTGC
48328014 CAAACATAGC
Statistics
Matches: 62, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
40 58 0.94
41 4 0.06
ACGTcount: A:0.31, C:0.26, G:0.19, T:0.23
Consensus pattern (40 bp):
AAGCTATCTCCAAGCGCACACTAAGTGCTGTATATAGCCA
Found at i:48328023 original size:40 final size:40
Alignment explanation
Indices: 48327939--48328025 Score: 111
Period size: 40 Copynumber: 2.2 Consensus size: 40
48327929 AGTGCTGTAT
* * *** *
48327939 ATAGCCAAAGCTATCTCGAAGCGCACACTAAGTGCTGTAT
1 ATAGCCGAAGCTATCTCGAAGCACACACTAAGTGCCAAAC
*
48327979 ATAGCCGAAGCTGTCTCGAAGCACACACTAAGTGCCAAAC
1 ATAGCCGAAGCTATCTCGAAGCACACACTAAGTGCCAAAC
48328019 ATAGCCG
1 ATAGCCG
48328026 CTTTGTTGTC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.33, C:0.28, G:0.21, T:0.18
Consensus pattern (40 bp):
ATAGCCGAAGCTATCTCGAAGCACACACTAAGTGCCAAAC
Found at i:48335901 original size:51 final size:51
Alignment explanation
Indices: 48335819--48335939 Score: 179
Period size: 51 Copynumber: 2.3 Consensus size: 51
48335809 AGTGACAAGC
* * **
48335819 GACAAGCGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAGT
1 GACAAGTGAAAAGTGATAAGTGAAAGCTTTAGCTACACTTATCTGATCAGT
*
48335870 GACAAGTGAAAAGTGATAAGTGAAAGTTTTAGCTACACTTATCTGATCAGT
1 GACAAGTGAAAAGTGATAAGTGAAAGCTTTAGCTACACTTATCTGATCAGT
48335921 GACAAGTGATAAATGTGAT
1 GACAAGTGA-AAA-GTGAT
48335940 CAATGTAAGA
Statistics
Matches: 63, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
51 55 0.87
52 3 0.05
53 5 0.08
ACGTcount: A:0.36, C:0.13, G:0.23, T:0.28
Consensus pattern (51 bp):
GACAAGTGAAAAGTGATAAGTGAAAGCTTTAGCTACACTTATCTGATCAGT
Found at i:48335929 original size:58 final size:57
Alignment explanation
Indices: 48335804--48335929 Score: 138
Period size: 51 Copynumber: 2.3 Consensus size: 57
48335794 ATCTGATCAG
* * **
48335804 TGATAAGTGACAAGCGACAAGCGACAAGTGATAAGTGGTAGCTTTAGCTACACTTATC
1 TGAT-AGTGACAAGTGACAAGCGAAAAGTGATAAGTGAAAGCTTTAGCTACACTTATC
* *
48335862 TG--A-T--C-AGTGACAAGTGAAAAGTGATAAGTGAAAGTTTTAGCTACACTTATC
1 TGATAGTGACAAGTGACAAGCGAAAAGTGATAAGTGAAAGCTTTAGCTACACTTATC
48335913 TGATCAGTGACAAGTGA
1 TGAT-AGTGACAAGTGA
48335930 TAAATGTGAT
Statistics
Matches: 55, Mismatches: 6, Indels: 14
0.73 0.08 0.19
Matches are distributed among these distances:
51 42 0.76
52 1 0.02
54 2 0.04
55 2 0.04
57 1 0.02
58 7 0.13
ACGTcount: A:0.36, C:0.14, G:0.24, T:0.26
Consensus pattern (57 bp):
TGATAGTGACAAGTGACAAGCGAAAAGTGATAAGTGAAAGCTTTAGCTACACTTATC
Found at i:48340422 original size:44 final size:45
Alignment explanation
Indices: 48340163--48340973 Score: 206
Period size: 44 Copynumber: 18.2 Consensus size: 45
48340153 CTGCAACTTT
* * * * *
48340163 AGGGAGATAAGATCTACCATTTTCAGTTTGCT-TCATTGCTACCTC
1 AGGGAGATAAGATCTACAATCTTCAATCTGCTCTC-TTGCTATCTC
* * * * * *
48340208 AGGGAGATAAGA-CTACAACCTTCGACCTGCTCCCTTGTTACCTC
1 AGGGAGATAAGATCTACAATCTTCAATCTGCTCTCTTGCTATCTC
* ** * * *
48340252 AGGGAGATAAG-GCT--AATGGCTAAAATCTGCTCCCCTGCTACCTC
1 AGGGAGATAAGATCTACAAT--CTTCAATCTGCTCTCTTGCTATCTC
* * ** * *
48340296 -GGGAAAATAAGAGTC-GCCGTCTTCGATCTGCTC-CACTGCTATCTC
1 AGGG-AGATAAGA-TCTACAATCTTCAATCTGCTCTC-TTGCTATCTC
* * * ** * *
48340341 AGGGAGATGAGATCTTCAATCTTCATTCTATTTTCTTGCTATCTG
1 AGGGAGATAAGATCTACAATCTTCAATCTGCTCTCTTGCTATCTC
* * *
48340386 AGGAAGATAAGA-CTACAATCTTCAATCTGCTCTCTTGCTACCTT
1 AGGGAGATAAGATCTACAATCTTCAATCTGCTCTCTTGCTATCTC
* ** * ** * * *
48340430 AGGGAGATAAG-GCTAGTAGCTAAAATCTGCTCCCCTGCTACCTC
1 AGGGAGATAAGATCTACAATCTTCAATCTGCTCTCTTGCTATCTC
* * * * * *
48340474 -GGAAAGATAGGATTCGT-C-ATCTTCGATCTGCTC-CACTGCCATCTT
1 AGG-GAGATAAGA-TC-TACAATCTTCAATCTGCTCTC-TTGCTATCTC
* * * *
48340519 AGGGAGGTAAGATCTTCAATCTTCAGTCTACT-TCCTTGCTA-CTTC
1 AGGGAGATAAGATCTACAATCTTCAATCTGCTCT-CTTGCTATC-TC
* * * *** * * *
48340564 AAGAAGAT-A-TTCTACAATCTTCGGCCTGCTCTCTTACTACCTT
1 AGGGAGATAAGATCTACAATCTTCAATCTGCTCTCTTGCTATCTC
* **** ** * * * *
48340607 AGGGAGATAAG-GCTAGTGGCTAAAATCTGCTCCCCTGCTACCTT
1 AGGGAGATAAGATCTACAATCTTCAATCTGCTCTCTTGCTATCTC
* ** * *
48340651 AGGAAGATAAGAT-TCACTGTCTTCGATCTGCTC-CACTGCTATCTC
1 AGGGAGATAAGATCT-ACAATCTTCAATCTGCTCTC-TTGCTATCTC
* * * **
48340696 AGGGAGATGAGATCTTCAATCTTCAATCTTCT-TCCTTGCTGCCTC
1 AGGGAGATAAGATCTACAATCTTCAATCTGCTCT-CTTGCTATCTC
* ** * *
48340741 AGGAAGATAAGA-CTACAATCTTCAGCCTGCTCCCTTGCTACCTC
1 AGGGAGATAAGATCTACAATCTTCAATCTGCTCTCTTGCTATCTC
* * **** ** * *
48340785 AGGGAGAGAAG-GCTAGTGGCTAAAATCTGCTCCCTTGCTACCTC
1 AGGGAGATAAGATCTACAATCTTCAATCTGCTCTCTTGCTATCTC
* * ** * * *
48340829 -GGAAAGATAAGAT-TCGCCGTCTTCGATCTGCTC-CACTACTATCTC
1 AGG-GAGATAAGATCT-ACAATCTTCAATCTGCTCTC-TTGCTATCTC
* * * *
48340874 AGGGAGATGAGATCTTCAATCTTCAGTCTGCT-TCCTTGCTACCTC
1 AGGGAGATAAGATCTACAATCTTCAATCTGCTCT-CTTGCTATCTC
* * ** *
48340919 AGGAAGATAAGA-CCACAATCTTCAGCCTGCTC-CTTTGCTACCTC
1 AGGGAGATAAGATCTACAATCTTCAATCTGCTCTC-TTGCTATCTC
*
48340963 ATGGAGATAAG
1 AGGGAGATAAG
48340974 GCTAGTGACT
Statistics
Matches: 553, Mismatches: 166, Indels: 95
0.68 0.20 0.12
Matches are distributed among these distances:
42 2 0.00
43 38 0.07
44 269 0.49
45 227 0.41
46 15 0.03
47 2 0.00
ACGTcount: A:0.25, C:0.26, G:0.19, T:0.30
Consensus pattern (45 bp):
AGGGAGATAAGATCTACAATCTTCAATCTGCTCTCTTGCTATCTC
Found at i:48340462 original size:178 final size:177
Alignment explanation
Indices: 48340193--48341244 Score: 1421
Period size: 178 Copynumber: 5.9 Consensus size: 177
48340183 TTTCAGTTTG
* * * *
48340193 CTTCATTGCTACCTCAGGGAGATAAGACTACAACCTTC-GACCTGCTCCCTTGTTACCTCAGGGA
1 CTTCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAG-CCTGCT-CCTTGCTACCTCAGGGA
* *
48340257 GATAAGGCTAATGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAAATAAGAGTCGCCGTCTTCGA
64 GATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAAATAAGATTCGCCGTCTTCGA
*
48340322 TCTGCTCCACTGCTATCTCAGGGAGATGAGATCTTCAATCTTCATTCTA
129 TCTGCTCCACTGCTATCTCAGGGAGATGAGATCTTCAATCTTCAATCTA
* * * * ** *
48340371 TTTTCTTGCTATCTGAGGAAGATAAGACTACAATCTTCAATCTGCTCTCTTGCTACCTTAGGGAG
1 CTTCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAGCCTGCTC-CTTGCTACCTCAGGGAG
* * * *
48340436 ATAAGGCTAGTAGCTAAAATCTGCTCCCCTGCTACCTC-GGAAAGATAGGATTCGTCATCTTCGA
65 ATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAA-ATAAGATTCGCCGTCTTCGA
* * * * *
48340500 TCTGCTCCACTGCCATCTTAGGGAGGTAAGATCTTCAATCTTCAGTCTA
129 TCTGCTCCACTGCTATCTCAGGGAGATGAGATCTTCAATCTTCAATCTA
* * ** * * *
48340549 CTTCCTTGCTACTTCAAGAAGAT-ATTCTACAATCTTCGGCCTGCTCTCTTACTACCTTAGGGAG
1 CTTCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAGCCTGCTC-CTTGCTACCTCAGGGAG
** * * *
48340613 ATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTTAGGAAGATAAGATTCACTGTCTTCGAT
65 ATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAAATAAGATTCGCCGTCTTCGAT
*
48340678 CTGCTCCACTGCTATCTCAGGGAGATGAGATCTTCAATCTTCAATCTT
130 CTGCTCCACTGCTATCTCAGGGAGATGAGATCTTCAATCTTCAATCTA
*
48340726 CTTCCTTGCTGCCTCAGGAAGATAAGACTACAATCTTCAGCCTGCTCCCTTGCTACCTCAGGGAG
1 CTTCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAGCCTGCT-CCTTGCTACCTCAGGGAG
* *
48340791 AGAAGGCTAGTGGCTAAAATCTGCTCCCTTGCTACCTC-GGAAAGATAAGATTCGCCGTCTTCGA
65 ATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAA-ATAAGATTCGCCGTCTTCGA
* * *
48340855 TCTGCTCCACTACTATCTCAGGGAGATGAGATCTTCAATCTTCAGTCTG
129 TCTGCTCCACTGCTATCTCAGGGAGATGAGATCTTCAATCTTCAATCTA
* *
48340904 CTTCCTTGCTACCTCAGGAAGATAAGACCACAATCTTCAGCCTGCTCCTTTGCTACCTCATGGAG
1 CTTCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAGCCTGCTCC-TTGCTACCTCAGGGAG
* * * *
48340969 ATAAGGCTAGTGACTAAAATCTGCTCCCCTACTACCTCGAGAAGATAAGATTCGCCGTCTTCGAT
65 ATAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAAATAAGATTCGCCGTCTTCGAT
** * *
48341034 CTGCTCCACTGCTATCTCAAAGAGATGAGATCTTTAATCTTCAATCTG
130 CTGCTCCACTGCTATCTCAGGGAGATGAGATCTTCAATCTTCAATCTA
* * * *
48341082 CTTCCTTGCTACCTCAGGAAGATAAAACCACAATCTTCAGCCTGCTCCATTGCTACCTTAGGGAA
1 CTTCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAGCCTGCTCC-TTGCTACCTCAGGGAG
* * * * *
48341147 ATAAGGCTAGTGGCTAAAATC-GACTCCCCTGCTACCTCGGGAAGATAAGATTCACTGTATTCAA
65 ATAAGGCTAGTGGCTAAAATCTG-CTCCCCTGCTACCTCGGGAAAATAAGATTCGCCGTCTTCGA
*
48341211 TCTGCTCCACTGCTATCTCAGGGAGATAAGATCT
129 TCTGCTCCACTGCTATCTCAGGGAGATGAGATCT
48341245 GTGAATTCAC
Statistics
Matches: 770, Mismatches: 94, Indels: 20
0.87 0.11 0.02
Matches are distributed among these distances:
177 162 0.21
178 604 0.78
179 4 0.01
ACGTcount: A:0.25, C:0.27, G:0.19, T:0.29
Consensus pattern (177 bp):
CTTCCTTGCTACCTCAGGAAGATAAGACTACAATCTTCAGCCTGCTCCTTGCTACCTCAGGGAGA
TAAGGCTAGTGGCTAAAATCTGCTCCCCTGCTACCTCGGGAAAATAAGATTCGCCGTCTTCGATC
TGCTCCACTGCTATCTCAGGGAGATGAGATCTTCAATCTTCAATCTA
Found at i:48342485 original size:20 final size:21
Alignment explanation
Indices: 48342437--48342494 Score: 57
Period size: 20 Copynumber: 2.8 Consensus size: 21
48342427 CACTTTTCAG
*
48342437 TTTTCAATTAATTCATATTTT
1 TTTTCAATTAATTAATATTTT
**
48342458 AATT-AATTAATTAAT-TTTT
1 TTTTCAATTAATTAATATTTT
48342477 TTTTCAATTCAATATAAT
1 TTTTCAATT-AAT-TAAT
48342495 CCCATTCACT
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
19 6 0.21
20 14 0.48
21 5 0.17
22 4 0.14
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTTCAATTAATTAATATTTT
Found at i:48348344 original size:25 final size:25
Alignment explanation
Indices: 48348316--48348410 Score: 154
Period size: 25 Copynumber: 3.8 Consensus size: 25
48348306 CTCTTTTAAT
* *
48348316 AACTGGGGCAAAGCCCTTTTTGATA
1 AACTGGGGCAAAGCCCTTTTCGGTA
48348341 AACTGGGGCAAAGCCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
* *
48348366 AACTGGGGTAAAGTCCTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTCGGTA
48348391 AACTGGGGCAAAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
48348411 AGCACTTCCT
Statistics
Matches: 64, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 64 1.00
ACGTcount: A:0.25, C:0.21, G:0.26, T:0.27
Consensus pattern (25 bp):
AACTGGGGCAAAGCCCTTTTCGGTA
Found at i:48348663 original size:27 final size:27
Alignment explanation
Indices: 48348633--48348861 Score: 282
Period size: 27 Copynumber: 8.5 Consensus size: 27
48348623 TCCCCCACAT
* * *
48348633 GGGTATCTCGGTAATTCTACCGTACAA
1 GGGTATTTCAGTAATTCTACCCTACAA
** *
48348660 GGGTATTTTGGTATTTCTACCCTACAA
1 GGGTATTTCAGTAATTCTACCCTACAA
* * *
48348687 GGGTATTTC-GATAATTCTACCATATAG
1 GGGTATTTCAG-TAATTCTACCCTACAA
*
48348714 GGGTATTTCAGTAATTCTACCCTACAG
1 GGGTATTTCAGTAATTCTACCCTACAA
* *
48348741 GGGTATTTCAGTAATTCTACCTTACAG
1 GGGTATTTCAGTAATTCTACCCTACAA
48348768 GGGTATTTCAGTAATTCTACCCTAC-A
1 GGGTATTTCAGTAATTCTACCCTACAA
* * *
48348794 GGAGTATTTCGGTATTTCTACCTTACAA
1 GG-GTATTTCAGTAATTCTACCCTACAA
48348822 GGGTATTTCAGTAATTCTACCCTACAA
1 GGGTATTTCAGTAATTCTACCCTACAA
*
48348849 GGGTATTTTAGTA
1 GGGTATTTCAGTA
48348862 TTTTACAAAT
Statistics
Matches: 177, Mismatches: 21, Indels: 8
0.86 0.10 0.04
Matches are distributed among these distances:
26 3 0.02
27 170 0.96
28 4 0.02
ACGTcount: A:0.26, C:0.19, G:0.19, T:0.36
Consensus pattern (27 bp):
GGGTATTTCAGTAATTCTACCCTACAA
Found at i:48348728 original size:81 final size:81
Alignment explanation
Indices: 48348633--48348890 Score: 315
Period size: 81 Copynumber: 3.2 Consensus size: 81
48348623 TCCCCCACAT
* * ** *
48348633 GGGTATCTCGGTAATTCTACCGTACAAGGGTATTTTGGTATTTCTACCCTACAAGGGTATTTC-G
1 GGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAG
*
48348697 ATAATTCTACCATATAG
66 -TAATTCTACCATACAG
* * * *
48348714 GGGTATTTCAGTAATTCTACCCTACAGGGGTATTTCAGTAATTCTACCTTACAGGGGTATTTCAG
1 GGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAG
*
48348779 TAATTCTACCCTACAG
66 TAATTCTACCATACAG
* * * *
48348795 GAGTATTTCGGTATTTCTACCTTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTTAG
1 GGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAG
* *
48348860 T-ATTTTA-CAAATCAG
66 TAATTCTACCATA-CAG
*
48348875 GGGTATTTTGGTAATT
1 GGGTATTTCGGTAATT
48348891 TTACAAACTA
Statistics
Matches: 150, Mismatches: 25, Indels: 5
0.83 0.14 0.03
Matches are distributed among these distances:
79 2 0.01
80 21 0.14
81 126 0.84
82 1 0.01
ACGTcount: A:0.26, C:0.17, G:0.19, T:0.37
Consensus pattern (81 bp):
GGGTATTTCGGTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAAGGGTATTTCAG
TAATTCTACCATACAG
Found at i:48348896 original size:27 final size:27
Alignment explanation
Indices: 48348849--48349214 Score: 372
Period size: 27 Copynumber: 13.6 Consensus size: 27
48348839 TACCCTACAA
48348849 GGGTATTTTAGT-ATTTTACAAATCAG
1 GGGTATTTTAGTAATTTTACAAATCAG
*
48348875 GGGTATTTTGGTAATTTTACAAA-CTAG
1 GGGTATTTTAGTAATTTTACAAATC-AG
*
48348902 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTAGTAATTTTACAAATCAG
* * **
48348929 GGGTATTTTTGTAAATTTACTGATC-G
1 GGGTATTTTAGTAATTTTACAAATCAG
*
48348955 AGGGTATTTTGGTAATTTTACAAA-CTAG
1 -GGGTATTTTAGTAATTTTACAAATC-AG
*
48348983 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTAGTAATTTTACAAATCAG
* * **
48349010 GGGTATTTTTGTAAATTTACTGATC-G
1 GGGTATTTTAGTAATTTTACAAATCAG
*
48349036 AGGGTATTTTGGTAATTTTACAAA-CTAG
1 -GGGTATTTTAGTAATTTTACAAATC-AG
*
48349064 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTAGTAATTTTACAAATCAG
* * **
48349091 GGGTATTTTTGTAAATTTACTGATC-G
1 GGGTATTTTAGTAATTTTACAAATCAG
*
48349117 AGGGTATTTTGGTAATTTTACAAA-CTAG
1 -GGGTATTTTAGTAATTTTACAAATC-AG
*
48349145 GGGTATTTTAGTAATTTTACAAACCAG
1 GGGTATTTTAGTAATTTTACAAATCAG
* * **
48349172 GGGTATTTTTGTAAATTTACTGATC-G
1 GGGTATTTTAGTAATTTTACAAATCAG
*
48349198 AGGGTATTTTGGTAATT
1 -GGGTATTTTAGTAATT
48349215 CTGTAAATCG
Statistics
Matches: 285, Mismatches: 39, Indels: 31
0.80 0.11 0.09
Matches are distributed among these distances:
26 19 0.07
27 259 0.91
28 7 0.02
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.41
Consensus pattern (27 bp):
GGGTATTTTAGTAATTTTACAAATCAG
Found at i:48349257 original size:81 final size:81
Alignment explanation
Indices: 48348875--48349214 Score: 680
Period size: 81 Copynumber: 4.2 Consensus size: 81
48348865 TACAAATCAG
48348875 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTTG
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTTG
48348940 TAAATTTACTGATCGA
66 TAAATTTACTGATCGA
48348956 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTTG
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTTG
48349021 TAAATTTACTGATCGA
66 TAAATTTACTGATCGA
48349037 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTTG
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTTG
48349102 TAAATTTACTGATCGA
66 TAAATTTACTGATCGA
48349118 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTTG
1 GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTTG
48349183 TAAATTTACTGATCGA
66 TAAATTTACTGATCGA
48349199 GGGTATTTTGGTAATT
1 GGGTATTTTGGTAATT
48349215 CTGTAAATCG
Statistics
Matches: 259, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
81 259 1.00
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.41
Consensus pattern (81 bp):
GGGTATTTTGGTAATTTTACAAACTAGGGGTATTTTAGTAATTTTACAAACCAGGGGTATTTTTG
TAAATTTACTGATCGA
Found at i:48349281 original size:26 final size:27
Alignment explanation
Indices: 48349208--48349387 Score: 256
Period size: 27 Copynumber: 6.7 Consensus size: 27
48349198 AGGGTATTTT
48349208 GGTAATTCTGTAAATCGAGGGTAAAAC
1 GGTAATTCTGTAAATCGAGGGTAAAAC
* *
48349235 GGTAATTCTATAAATCGAGGGTAAAAG
1 GGTAATTCTGTAAATCGAGGGTAAAAC
*
48349262 GGT-ATTGTGTAAATCGAGGGTAAAAC
1 GGTAATTCTGTAAATCGAGGGTAAAAC
* *
48349288 GGTAATTCTATAAATCGAGGGTAAAAT
1 GGTAATTCTGTAAATCGAGGGTAAAAC
*
48349315 GGT-ATTCTGTAAATCAAGGGTAAAAC
1 GGTAATTCTGTAAATCGAGGGTAAAAC
* *
48349341 GGTAATTTTGTAAATCGAGGGCAAAAC
1 GGTAATTCTGTAAATCGAGGGTAAAAC
* *
48349368 GATAATTCTATAAATCGAGG
1 GGTAATTCTGTAAATCGAGG
48349388 ATATTTGGGA
Statistics
Matches: 134, Mismatches: 17, Indels: 4
0.86 0.11 0.03
Matches are distributed among these distances:
26 46 0.34
27 88 0.66
ACGTcount: A:0.38, C:0.09, G:0.25, T:0.27
Consensus pattern (27 bp):
GGTAATTCTGTAAATCGAGGGTAAAAC
Found at i:48349283 original size:53 final size:53
Alignment explanation
Indices: 48349212--48349387 Score: 262
Period size: 53 Copynumber: 3.3 Consensus size: 53
48349202 TATTTTGGTA
48349212 ATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAAGGGT
1 ATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAAGGGT
* *
48349265 ATTGTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAATGGT
1 ATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAAGGGT
* * * * * *
48349318 ATTCTGTAAATCAAGGGTAAAACGGTAATTTTGTAAATCGAGGGCAAAACGAT
1 ATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAAGGGT
*
48349371 AATTCTATAAATCGAGG
1 -ATTCTGTAAATCGAGG
48349388 ATATTTGGGA
Statistics
Matches: 111, Mismatches: 11, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
53 97 0.87
54 14 0.13
ACGTcount: A:0.39, C:0.10, G:0.24, T:0.27
Consensus pattern (53 bp):
ATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAAGGGT
Found at i:48349295 original size:80 final size:80
Alignment explanation
Indices: 48349208--48349387 Score: 272
Period size: 80 Copynumber: 2.2 Consensus size: 80
48349198 AGGGTATTTT
* * *
48349208 GGTAATTCTGTAAATCGAGGGTAAAACGGTAATTCTATAAATCGAGGGTAAAAGGGT-ATTGTGT
1 GGTAATTCTATAAATCGAGGGTAAAACGGT-ATTCTATAAATCAAGGGTAAAACGGTAATTGTGT
*
48349272 AAATCGAGGGTAAAAC
65 AAATCGAGGGCAAAAC
* * *
48349288 GGTAATTCTATAAATCGAGGGTAAAATGGTATTCTGTAAATCAAGGGTAAAACGGTAATTTTGTA
1 GGTAATTCTATAAATCGAGGGTAAAACGGTATTCTATAAATCAAGGGTAAAACGGTAATTGTGTA
48349353 AATCGAGGGCAAAAC
66 AATCGAGGGCAAAAC
*
48349368 GATAATTCTATAAATCGAGG
1 GGTAATTCTATAAATCGAGG
48349388 ATATTTGGGA
Statistics
Matches: 91, Mismatches: 8, Indels: 2
0.90 0.08 0.02
Matches are distributed among these distances:
79 23 0.25
80 68 0.75
ACGTcount: A:0.38, C:0.09, G:0.25, T:0.27
Consensus pattern (80 bp):
GGTAATTCTATAAATCGAGGGTAAAACGGTATTCTATAAATCAAGGGTAAAACGGTAATTGTGTA
AATCGAGGGCAAAAC
Found at i:48351342 original size:18 final size:18
Alignment explanation
Indices: 48351319--48351404 Score: 91
Period size: 18 Copynumber: 4.7 Consensus size: 18
48351309 GAACGATTAT
* *
48351319 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAATCAA
*
48351337 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAATCAA
* * *
48351355 TTATTCAATAATAATCAG
1 TTATTCAGTAACAATCAA
* *
48351373 TTATTGAGTAACAATTAAA
1 TTATTCAGTAACAA-TCAA
48351392 TTATTCAGTAACA
1 TTATTCAGTAACA
48351405 GTCGATCTTT
Statistics
Matches: 54, Mismatches: 13, Indels: 1
0.79 0.19 0.01
Matches are distributed among these distances:
18 40 0.74
19 14 0.26
ACGTcount: A:0.41, C:0.13, G:0.10, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAACAATCAA
Found at i:48351360 original size:36 final size:37
Alignment explanation
Indices: 48351319--48351407 Score: 119
Period size: 36 Copynumber: 2.4 Consensus size: 37
48351309 GAACGATTAT
*
48351319 TTATTCAGTAACAGTCAGTTATTCG-GTAACAA-TCAA
1 TTATTCAGTAACAGTCAGTTATT-GAGTAACAATTAAA
* * *
48351355 TTATTCAATAATAATCAGTTATTGAGTAACAATTAAA
1 TTATTCAGTAACAGTCAGTTATTGAGTAACAATTAAA
48351392 TTATTCAGTAACAGTC
1 TTATTCAGTAACAGTC
48351408 GATCTTTCCA
Statistics
Matches: 44, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
35 1 0.02
36 27 0.61
37 16 0.36
ACGTcount: A:0.39, C:0.13, G:0.11, T:0.36
Consensus pattern (37 bp):
TTATTCAGTAACAGTCAGTTATTGAGTAACAATTAAA
Found at i:48351601 original size:47 final size:47
Alignment explanation
Indices: 48351532--48351648 Score: 166
Period size: 47 Copynumber: 2.5 Consensus size: 47
48351522 TAGTAACAGT
* *
48351532 AACAGTAGCAATACGGTACACAGAGTACCTCA-TCAGAACAAATCCGG
1 AACAGTAACAATACGGTACACAGAGTACCTCATTC-GAACAAATCCGA
*
48351579 AACAGTAACAATACGGTACACAGAGTACCTCATTCGAACAAATCTGA
1 AACAGTAACAATACGGTACACAGAGTACCTCATTCGAACAAATCCGA
*
48351626 AACAGTAACAGTAACGGTA-ACAG
1 AACAGTAACAAT-ACGGTACACAG
48351649 TAACAATATC
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
47 56 0.88
48 8 0.12
ACGTcount: A:0.43, C:0.23, G:0.18, T:0.16
Consensus pattern (47 bp):
AACAGTAACAATACGGTACACAGAGTACCTCATTCGAACAAATCCGA
Found at i:48351696 original size:12 final size:12
Alignment explanation
Indices: 48351679--48351703 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
48351669 AGTGCCGAAT
48351679 CGGTAACAGTAA
1 CGGTAACAGTAA
48351691 CGGTAACAGTAA
1 CGGTAACAGTAA
48351703 C
1 C
48351704 AGTAGTCGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:48353423 original size:18 final size:18
Alignment explanation
Indices: 48353400--48353485 Score: 100
Period size: 18 Copynumber: 4.7 Consensus size: 18
48353390 GAACGATTAT
* *
48353400 TTATTCAGTAACAGTCAG
1 TTATTCAGTAACAATCAA
*
48353418 TTATTCGGTAACAATCAA
1 TTATTCAGTAACAATCAA
* * *
48353436 TTATTCAATAATAATCAG
1 TTATTCAGTAACAATCAA
*
48353454 TTATTCAGTAACAATTAAA
1 TTATTCAGTAACAA-TCAA
48353473 TTATTCAGTAACA
1 TTATTCAGTAACA
48353486 GTCGATCTTT
Statistics
Matches: 56, Mismatches: 11, Indels: 1
0.82 0.16 0.01
Matches are distributed among these distances:
18 41 0.73
19 15 0.27
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.36
Consensus pattern (18 bp):
TTATTCAGTAACAATCAA
Found at i:48353441 original size:36 final size:37
Alignment explanation
Indices: 48353400--48353488 Score: 126
Period size: 36 Copynumber: 2.4 Consensus size: 37
48353390 GAACGATTAT
* *
48353400 TTATTCAGTAACAGTCAGTTATTCGGTAACAA-TCAA
1 TTATTCAGTAACAGTCAGTTATTCAGTAACAATTAAA
* * *
48353436 TTATTCAATAATAATCAGTTATTCAGTAACAATTAAA
1 TTATTCAGTAACAGTCAGTTATTCAGTAACAATTAAA
48353473 TTATTCAGTAACAGTC
1 TTATTCAGTAACAGTC
48353489 GATCTTTCCA
Statistics
Matches: 44, Mismatches: 8, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
36 28 0.64
37 16 0.36
ACGTcount: A:0.39, C:0.15, G:0.10, T:0.36
Consensus pattern (37 bp):
TTATTCAGTAACAGTCAGTTATTCAGTAACAATTAAA
Found at i:48353682 original size:47 final size:47
Alignment explanation
Indices: 48353613--48353729 Score: 166
Period size: 47 Copynumber: 2.5 Consensus size: 47
48353603 TAGTAACAGT
* *
48353613 AACAGTAGCAATACGGTACACAGAGTACCTCA-TCAGAACAAATCCGG
1 AACAGTAACAATACGGTACACAGAGTACCTCATTC-GAACAAATCCGA
*
48353660 AACAGTAACAATACGGTACACAGAGTACCTCATTCGAACAAATCTGA
1 AACAGTAACAATACGGTACACAGAGTACCTCATTCGAACAAATCCGA
*
48353707 AACAGTAACAGTAACGGTA-ACAG
1 AACAGTAACAAT-ACGGTACACAG
48353730 TAACAATATC
Statistics
Matches: 64, Mismatches: 4, Indels: 4
0.89 0.06 0.06
Matches are distributed among these distances:
47 56 0.88
48 8 0.12
ACGTcount: A:0.43, C:0.23, G:0.18, T:0.16
Consensus pattern (47 bp):
AACAGTAACAATACGGTACACAGAGTACCTCATTCGAACAAATCCGA
Found at i:48353777 original size:12 final size:12
Alignment explanation
Indices: 48353760--48353784 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
48353750 AGTGCCGAAT
48353760 CGGTAACAGTAA
1 CGGTAACAGTAA
48353772 CGGTAACAGTAA
1 CGGTAACAGTAA
48353784 C
1 C
48353785 AGTAGTCGGC
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:48353958 original size:20 final size:21
Alignment explanation
Indices: 48353910--48353967 Score: 57
Period size: 20 Copynumber: 2.8 Consensus size: 21
48353900 CACTTTTCAG
*
48353910 TTTTCAATTAATTCATATTTT
1 TTTTCAATTAATTAATATTTT
**
48353931 AATT-AATTAATTAAT-TTTT
1 TTTTCAATTAATTAATATTTT
48353950 TTTTCAATTCAATATAAT
1 TTTTCAATT-AAT-TAAT
48353968 CCCATTCACT
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
19 6 0.21
20 14 0.48
21 5 0.17
22 4 0.14
ACGTcount: A:0.36, C:0.07, G:0.00, T:0.57
Consensus pattern (21 bp):
TTTTCAATTAATTAATATTTT
Found at i:48355398 original size:20 final size:20
Alignment explanation
Indices: 48355375--48355422 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 20
48355365 TTTCATTCTG
48355375 TTTCTTTTCTATCTT-TTTTT
1 TTTCTTTTCT-TCTTCTTTTT
* *
48355395 TTTCATTTCTTTTTCTTTTT
1 TTTCTTTTCTTCTTCTTTTT
48355415 TTTACTTT
1 TTT-CTTT
48355423 ATATATATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 3
0.79 0.10 0.10
Matches are distributed among these distances:
19 3 0.13
20 17 0.74
21 3 0.13
ACGTcount: A:0.06, C:0.15, G:0.00, T:0.79
Consensus pattern (20 bp):
TTTCTTTTCTTCTTCTTTTT
Found at i:48355700 original size:5 final size:5
Alignment explanation
Indices: 48355692--48355733 Score: 59
Period size: 5 Copynumber: 8.2 Consensus size: 5
48355682 AATTTATTTC
48355692 ATAAT ATAAT ATAAT ATAAT ATAAT ATTAAT ATTAAT -TAAT A
1 ATAAT ATAAT ATAAT ATAAT ATAAT A-TAAT A-TAAT ATAAT A
48355734 ATTATACCAA
Statistics
Matches: 35, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
4 4 0.11
5 21 0.60
6 10 0.29
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (5 bp):
ATAAT
Found at i:48357771 original size:21 final size:20
Alignment explanation
Indices: 48357747--48357786 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 20
48357737 TGACCTTCGC
*
48357747 TTTATTGCTTTTATTCTTCTT
1 TTTATTACTTTTATT-TTCTT
*
48357768 TTTATTATTTTTATTTTCT
1 TTTATTACTTTTATTTTCT
48357787 GTACTTTTGT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
20 4 0.24
21 13 0.76
ACGTcount: A:0.12, C:0.10, G:0.03, T:0.75
Consensus pattern (20 bp):
TTTATTACTTTTATTTTCTT
Found at i:48362152 original size:12 final size:12
Alignment explanation
Indices: 48362132--48362162 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
48362122 TTGTTTTTAA
*
48362132 GAAAACACGCGC
1 GAAATCACGCGC
48362144 GAAATCACGCGC
1 GAAATCACGCGC
48362156 GAAATCA
1 GAAATCA
48362163 TAAAAGGACA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.42, C:0.29, G:0.23, T:0.06
Consensus pattern (12 bp):
GAAATCACGCGC
Found at i:48363042 original size:14 final size:16
Alignment explanation
Indices: 48363019--48363056 Score: 55
Period size: 14 Copynumber: 2.6 Consensus size: 16
48363009 AATGACACGT
48363019 ATAA-AGAAATTTTA-
1 ATAATAGAAATTTTAC
48363033 A-AATAGAAATTTTAC
1 ATAATAGAAATTTTAC
48363048 ATAATAGAA
1 ATAATAGAA
48363057 CTAATAAAGA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
13 2 0.10
14 11 0.52
15 1 0.05
16 7 0.33
ACGTcount: A:0.58, C:0.03, G:0.08, T:0.32
Consensus pattern (16 bp):
ATAATAGAAATTTTAC
Found at i:48364865 original size:20 final size:20
Alignment explanation
Indices: 48364840--48364883 Score: 88
Period size: 20 Copynumber: 2.2 Consensus size: 20
48364830 CCCGTGTGGC
48364840 GTAGAGGCACGGCCATGGGA
1 GTAGAGGCACGGCCATGGGA
48364860 GTAGAGGCACGGCCATGGGA
1 GTAGAGGCACGGCCATGGGA
48364880 GTAG
1 GTAG
48364884 GCCGTGTAAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.25, C:0.18, G:0.45, T:0.11
Consensus pattern (20 bp):
GTAGAGGCACGGCCATGGGA
Found at i:48364976 original size:21 final size:22
Alignment explanation
Indices: 48364951--48365012 Score: 60
Period size: 21 Copynumber: 2.9 Consensus size: 22
48364941 CTGAAGGTGT
48364951 CACACGCCCGTGTGGCAATCAGA
1 CACACGCCCGTGTGGCAATCA-A
* *
48364974 CAC-GGCCC-TGTGTCCAA-CAA
1 CACACGCCCGTGTG-GCAATCAA
48364994 CACACGCCCGTGTGG-AATC
1 CACACGCCCGTGTGGCAATC
48365013 CTTAGCCCCC
Statistics
Matches: 31, Mismatches: 4, Indels: 10
0.69 0.09 0.22
Matches are distributed among these distances:
20 6 0.19
21 11 0.35
22 11 0.35
23 3 0.10
ACGTcount: A:0.24, C:0.37, G:0.24, T:0.15
Consensus pattern (22 bp):
CACACGCCCGTGTGGCAATCAA
Found at i:48367992 original size:17 final size:17
Alignment explanation
Indices: 48367970--48368004 Score: 70
Period size: 17 Copynumber: 2.1 Consensus size: 17
48367960 CGTGCGGACG
48367970 TGTTGTCTTCCACTTTA
1 TGTTGTCTTCCACTTTA
48367987 TGTTGTCTTCCACTTTA
1 TGTTGTCTTCCACTTTA
48368004 T
1 T
48368005 CAAGAAACCC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.11, C:0.23, G:0.11, T:0.54
Consensus pattern (17 bp):
TGTTGTCTTCCACTTTA
Found at i:48369585 original size:22 final size:22
Alignment explanation
Indices: 48369556--48369612 Score: 66
Period size: 22 Copynumber: 2.7 Consensus size: 22
48369546 ATACTAATTG
*
48369556 AATAATAATATATAA-AATTAA
1 AATAATAATATATAATAAATAA
*
48369577 AATAAATAAAATA-AATAAATAA
1 AAT-AATAATATATAATAAATAA
48369599 AATAATAATA-ATAA
1 AATAATAATATATAA
48369613 CAATAATAAC
Statistics
Matches: 30, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
20 1 0.03
21 13 0.43
22 16 0.53
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (22 bp):
AATAATAATATATAATAAATAA
Found at i:48369594 original size:13 final size:13
Alignment explanation
Indices: 48369562--48369603 Score: 57
Period size: 13 Copynumber: 3.1 Consensus size: 13
48369552 ATTGAATAAT
*
48369562 AATATATAAAATTAA
1 AATAAATAAAA-T-A
48369577 AATAAATAAAATA
1 AATAAATAAAATA
48369590 AATAAATAAAATA
1 AATAAATAAAATA
48369603 A
1 A
48369604 TAATAATAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
13 15 0.58
14 1 0.04
15 10 0.38
ACGTcount: A:0.74, C:0.00, G:0.00, T:0.26
Consensus pattern (13 bp):
AATAAATAAAATA
Found at i:48369595 original size:18 final size:19
Alignment explanation
Indices: 48369574--48369627 Score: 53
Period size: 18 Copynumber: 2.9 Consensus size: 19
48369564 TATATAAAAT
48369574 TAAAATAAATAA-AATAAA
1 TAAAATAAATAACAATAAA
*
48369592 T-AAATAAAATAATAAT-AA
1 TAAAAT-AAATAACAATAAA
48369610 TAACAAT-AATAACAATAA
1 TAA-AATAAATAACAATAA
48369628 TGAGAATAAT
Statistics
Matches: 30, Mismatches: 1, Indels: 9
0.75 0.03 0.22
Matches are distributed among these distances:
17 4 0.13
18 18 0.60
19 5 0.17
20 3 0.10
ACGTcount: A:0.72, C:0.04, G:0.00, T:0.24
Consensus pattern (19 bp):
TAAAATAAATAACAATAAA
Found at i:48369617 original size:15 final size:14
Alignment explanation
Indices: 48369556--48369642 Score: 72
Period size: 15 Copynumber: 6.0 Consensus size: 14
48369546 ATACTAATTG
48369556 AATAATAATATATAA
1 AATAATAATA-ATAA
48369571 AATTAA-AATAAATAA
1 AA-TAATAAT-AATAA
48369586 AAT-A-AATAAATAA
1 AATAATAAT-AATAA
48369599 AATAATAATAATAA
1 AATAATAATAATAA
*
48369613 CAATAATAACAATAA
1 -AATAATAATAATAA
* *
48369628 TGAGAATAATAATAA
1 -AATAATAATAATAA
48369643 TAACAAAATG
Statistics
Matches: 62, Mismatches: 5, Indels: 10
0.81 0.06 0.13
Matches are distributed among these distances:
13 13 0.21
14 7 0.11
15 38 0.61
16 4 0.06
ACGTcount: A:0.69, C:0.02, G:0.02, T:0.26
Consensus pattern (14 bp):
AATAATAATAATAA
Found at i:48369628 original size:9 final size:9
Alignment explanation
Indices: 48369599--48369645 Score: 58
Period size: 9 Copynumber: 5.2 Consensus size: 9
48369589 AAATAAATAA
*
48369599 AATAATAAT
1 AATAACAAT
48369608 AATAACAAT
1 AATAACAAT
48369617 AATAACAAT
1 AATAACAAT
* *
48369626 AATGAGAAT
1 AATAACAAT
*
48369635 AATAATAAT
1 AATAACAAT
48369644 AA
1 AA
48369646 CAAAATGTAC
Statistics
Matches: 33, Mismatches: 5, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
9 33 1.00
ACGTcount: A:0.66, C:0.04, G:0.04, T:0.26
Consensus pattern (9 bp):
AATAACAAT
Found at i:48379871 original size:13 final size:13
Alignment explanation
Indices: 48379855--48379879 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
48379845 ATTCCCTTTA
48379855 TTTTTTCCCCAAC
1 TTTTTTCCCCAAC
48379868 TTTTTTCCCCAA
1 TTTTTTCCCCAA
48379880 ATTAGTTCCC
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:0.16, C:0.36, G:0.00, T:0.48
Consensus pattern (13 bp):
TTTTTTCCCCAAC
Found at i:48379874 original size:76 final size:78
Alignment explanation
Indices: 48379640--48379917 Score: 222
Period size: 77 Copynumber: 3.6 Consensus size: 78
48379630 TGCCTTGGTC
** * * * * * *
48379640 ATTTTCCAAAAATCAGTTCCCCCTCCCT-AAAATCCCTAAGTAATTTTGCCAGAA-CCCT-TCCC
1 ATTTTCCCCAAATCAGTTCCCCCTCCCTCGAAATCCCTAA-CATTTTTCCCAAAATCCCTAT-CT
* * *
48379702 CTTATTCCTCAA-TT
64 TTTTTTCCCCAACTT
* * * *
48379716 CATTTCCCCCAAATCAGTTCCCCCTCCC-CAAAACCCCT-A-ATTTTCACCCAAAATCCCTATCT
1 -ATTTTCCCCAAATCAGTTCCCCCTCCCTCGAAATCCCTAACATTTT-TCCCAAAATCCCTATCT
* **
48379778 TTTTTTCCCTATTTT
64 TTTTTTCCCCAACTT
*
48379793 ATTTTCCCCAAATCAGTTCACCCCTCCCTCGAAATCCCTAACATTTTTCCC-AATTCCCT-T-TA
1 ATTTTCCCCAAATCAGTTC-CCCCTCCCTCGAAATCCCTAACATTTTTCCCAAAATCCCTATCT-
48379855 TTTTTTCCCCAACTT
64 TTTTTTCCCCAACTT
*
48379870 -TTTTCCCCAAATTAGTTCCCCCT-CCTCGAAATCCCTAAC-TCTTTTCCC
1 ATTTTCCCCAAATCAGTTCCCCCTCCCTCGAAATCCCTAACAT-TTTTCCC
48379918 CAACGTCTAC
Statistics
Matches: 167, Mismatches: 23, Indels: 25
0.78 0.11 0.12
Matches are distributed among these distances:
73 1 0.01
74 27 0.16
75 10 0.06
76 49 0.29
77 56 0.34
78 15 0.09
79 4 0.02
80 5 0.03
ACGTcount: A:0.23, C:0.38, G:0.03, T:0.35
Consensus pattern (78 bp):
ATTTTCCCCAAATCAGTTCCCCCTCCCTCGAAATCCCTAACATTTTTCCCAAAATCCCTATCTTT
TTTTCCCCAACTT
Done.