Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr03 135709677
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: 135709677
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 350 characters in sequence are not A, C, G, or T
File 47 of 438
Found at i:11819882 original size:46 final size:44
Alignment explanation
Indices: 11819823--11819937 Score: 149
Period size: 44 Copynumber: 2.6 Consensus size: 44
11819813 ACAGGACAGA
* *
11819823 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATT--AAATATGGCATTGGAG
* *
11819869 ACAGGATTGAGCCATGTAAGTCCATATTATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
* **
11819913 ACAGGAATAATTCATGTAAGTCCAT
1 ACAGGAATGAGCCATGTAAGTCCAT
11819938 GTCAAAGACA
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
44 35 0.57
46 26 0.43
ACGTcount: A:0.36, C:0.14, G:0.23, T:0.28
Consensus pattern (44 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAATATGGCATTGGAG
Found at i:11819918 original size:44 final size:45
Alignment explanation
Indices: 11819823--11819956 Score: 153
Period size: 46 Copynumber: 3.0 Consensus size: 45
11819813 ACAGGACAGA
* *
11819823 ACAGAAATGAGCCATGTAAGTCCATATTAGAAATATGGCTTTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTA-AAATATGGCATTGGAG
* *
11819869 ACAGGATTGAGCCATGTAAGTCCATATT-ATATATGGCATTGGAG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
* ** * * *
11819913 ACAGGAATAATTCATGTAAGTCCATGTCAAAGACATGGCATTGG
1 ACAGGAATGAGCCATGTAAGTCCATATTAAA-ATATGGCATTGG
11819957 CAGGATATTG
Statistics
Matches: 74, Mismatches: 12, Indels: 4
0.82 0.13 0.04
Matches are distributed among these distances:
44 36 0.49
45 1 0.01
46 37 0.50
ACGTcount: A:0.35, C:0.14, G:0.24, T:0.27
Consensus pattern (45 bp):
ACAGGAATGAGCCATGTAAGTCCATATTAAAATATGGCATTGGAG
Found at i:11822538 original size:47 final size:47
Alignment explanation
Indices: 11822485--11822578 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
11822475 TTACAAACTC
*
11822485 TGCATGAAAAATAGTTGTATGCTAAATTCAGTAAATGTGAATTCTGA
1 TGCATGAAAAATAGTTGTATACTAAATTCAGTAAATGTGAATTCTGA
11822532 TGCATGAAAAATAGTTGTATACTAAATTCAGTAAATGTGAATTCTGA
1 TGCATGAAAAATAGTTGTATACTAAATTCAGTAAATGTGAATTCTGA
11822579 CTTTAGGAAG
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.39, C:0.09, G:0.18, T:0.34
Consensus pattern (47 bp):
TGCATGAAAAATAGTTGTATACTAAATTCAGTAAATGTGAATTCTGA
Found at i:11830571 original size:15 final size:14
Alignment explanation
Indices: 11830550--11830596 Score: 51
Period size: 15 Copynumber: 3.2 Consensus size: 14
11830540 AATTAATATA
11830550 TAATTAATCAAAT-T
1 TAATTAAT-AAATCT
11830564 TAACTTAATAAATCT
1 TAA-TTAATAAATCT
*
11830579 TAATTAAGTTAATCT
1 TAATTAA-TAAATCT
11830594 TAA
1 TAA
11830597 CTTTAATTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
14 11 0.38
15 18 0.62
ACGTcount: A:0.47, C:0.09, G:0.02, T:0.43
Consensus pattern (14 bp):
TAATTAATAAATCT
Found at i:11832597 original size:19 final size:19
Alignment explanation
Indices: 11832575--11832611 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
11832565 ACCACTGTCA
11832575 CCCACCGTAATAAAATTTG
1 CCCACCGTAATAAAATTTG
*
11832594 CCCACCGTAATCAAATTT
1 CCCACCGTAATAAAATTT
11832612 TTTATTAACT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.35, C:0.30, G:0.08, T:0.27
Consensus pattern (19 bp):
CCCACCGTAATAAAATTTG
Found at i:11833391 original size:30 final size:30
Alignment explanation
Indices: 11833334--11833391 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
11833324 GGGAGGGGAA
* * **
11833334 TAAAAGTTTTGGGGGCAAAGTGGAAAGGAG
1 TAAAAGTTTTGAGGGAAAAGTAAAAAGGAG
11833364 TAAAAGTTTTGAGGGAAAAGTAAAAAGG
1 TAAAAGTTTTGAGGGAAAAGTAAAAAGG
11833392 TTTGTGAGTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
30 24 1.00
ACGTcount: A:0.43, C:0.02, G:0.34, T:0.21
Consensus pattern (30 bp):
TAAAAGTTTTGAGGGAAAAGTAAAAAGGAG
Found at i:11851271 original size:37 final size:35
Alignment explanation
Indices: 11851228--11851312 Score: 102
Period size: 37 Copynumber: 2.4 Consensus size: 35
11851218 AACATCATAC
11851228 ATATTTTATTTGTTATTAT-TAATTAATTTTAAATTAT
1 ATATTTTATTT-TTATTATAT-ATTAATTTTAAA-TAT
*
11851265 ATATTTTATTATTTATTATATGTTAATTTTAAATAT
1 ATATTTTATT-TTTATTATATATTAATTTTAAATAT
*
11851301 ACA-TTTATTTTT
1 ATATTTTATTTTT
11851313 TAAATTCATA
Statistics
Matches: 44, Mismatches: 2, Indels: 7
0.83 0.04 0.13
Matches are distributed among these distances:
34 3 0.07
35 6 0.14
36 5 0.11
37 28 0.64
38 2 0.05
ACGTcount: A:0.34, C:0.01, G:0.02, T:0.62
Consensus pattern (35 bp):
ATATTTTATTTTTATTATATATTAATTTTAAATAT
Found at i:11851948 original size:16 final size:17
Alignment explanation
Indices: 11851927--11851958 Score: 57
Period size: 16 Copynumber: 1.9 Consensus size: 17
11851917 ATAAATCATT
11851927 AAAAATTT-TAAAAATA
1 AAAAATTTATAAAAATA
11851943 AAAAATTTATAAAAAT
1 AAAAATTTATAAAAAT
11851959 TAATTATACA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (17 bp):
AAAAATTTATAAAAATA
Found at i:11856249 original size:32 final size:33
Alignment explanation
Indices: 11856193--11856254 Score: 81
Period size: 32 Copynumber: 1.9 Consensus size: 33
11856183 ATCAATATGT
* * *
11856193 GTTATTAAATTAAATTAATTAA-TTTATAATGA
1 GTTACTAAATTAAAGTAATCAATTTTATAATGA
*
11856225 GTTACTAAATTTAAGTAATCAATTTTATAA
1 GTTACTAAATTAAAGTAATCAATTTTATAA
11856255 GTTCATGATG
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
32 18 0.72
33 7 0.28
ACGTcount: A:0.45, C:0.03, G:0.06, T:0.45
Consensus pattern (33 bp):
GTTACTAAATTAAAGTAATCAATTTTATAATGA
Found at i:11858736 original size:9 final size:9
Alignment explanation
Indices: 11858724--11858760 Score: 65
Period size: 9 Copynumber: 4.1 Consensus size: 9
11858714 AAGAAAAAGT
*
11858724 CAAAAGGCA
1 CAAAAGTCA
11858733 CAAAAGTCA
1 CAAAAGTCA
11858742 CAAAAGTCA
1 CAAAAGTCA
11858751 CAAAAGTCA
1 CAAAAGTCA
11858760 C
1 C
11858761 GGTCTTAACT
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 27 1.00
ACGTcount: A:0.54, C:0.24, G:0.14, T:0.08
Consensus pattern (9 bp):
CAAAAGTCA
Found at i:11858737 original size:16 final size:16
Alignment explanation
Indices: 11858718--11858759 Score: 57
Period size: 18 Copynumber: 2.5 Consensus size: 16
11858708 CAAAAAAAGA
11858718 AAAAGTCAAAAGGCAC
1 AAAAGTCAAAAGGCAC
*
11858734 AAAAGTCACAAAAGTCAC
1 AAAAGT--CAAAAGGCAC
11858752 AAAAGTCA
1 AAAAGTCA
11858760 CGGTCTTAAC
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
16 8 0.35
18 15 0.65
ACGTcount: A:0.57, C:0.19, G:0.14, T:0.10
Consensus pattern (16 bp):
AAAAGTCAAAAGGCAC
Found at i:11873447 original size:23 final size:24
Alignment explanation
Indices: 11873421--11873468 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
11873411 AGAAAAGAAC
11873421 AAACTGAAAC-AAAAAATTGTCCA
1 AAACTGAAACAAAAAAATTGTCCA
11873444 AAACTGAAACAAAAAAATTGTCCA
1 AAACTGAAACAAAAAAATTGTCCA
11873468 A
1 A
11873469 CTGAGATTCA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 10 0.42
24 14 0.58
ACGTcount: A:0.58, C:0.17, G:0.08, T:0.17
Consensus pattern (24 bp):
AAACTGAAACAAAAAAATTGTCCA
Found at i:11875694 original size:17 final size:18
Alignment explanation
Indices: 11875666--11875699 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
11875656 CATATATGTA
*
11875666 ACATAAACATATTTATTC
1 ACATAAACATATATATTC
11875684 ACATAAA-ATATATATT
1 ACATAAACATATATATT
11875700 TAATGATATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.50, C:0.12, G:0.00, T:0.38
Consensus pattern (18 bp):
ACATAAACATATATATTC
Found at i:11875938 original size:31 final size:31
Alignment explanation
Indices: 11875880--11875938 Score: 75
Period size: 31 Copynumber: 1.9 Consensus size: 31
11875870 AGTGGGACTG
* *
11875880 AAACTAGCAGGAAGCGAAGCTAGCGAGATCA
1 AAACTAGCAGGAAGCAAAGCTAACGAGATCA
*
11875911 AAACTAGCTGGAAGCAAAAG-TAACGAGA
1 AAACTAGCAGGAAGC-AAAGCTAACGAGA
11875939 GGTGAAGCTA
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
31 21 0.88
32 3 0.12
ACGTcount: A:0.46, C:0.17, G:0.27, T:0.10
Consensus pattern (31 bp):
AAACTAGCAGGAAGCAAAGCTAACGAGATCA
Found at i:11877455 original size:26 final size:26
Alignment explanation
Indices: 11877425--11877477 Score: 106
Period size: 26 Copynumber: 2.0 Consensus size: 26
11877415 ATATAGCAAA
11877425 AACAAACCTCTCAATTCAATAAACTT
1 AACAAACCTCTCAATTCAATAAACTT
11877451 AACAAACCTCTCAATTCAATAAACTT
1 AACAAACCTCTCAATTCAATAAACTT
11877477 A
1 A
11877478 GTTTTTCCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.47, C:0.26, G:0.00, T:0.26
Consensus pattern (26 bp):
AACAAACCTCTCAATTCAATAAACTT
Found at i:11881234 original size:16 final size:15
Alignment explanation
Indices: 11881209--11881242 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
11881199 CATAGGAAAC
*
11881209 AGAAATGGGAAAATAA
1 AGAAAAGGGAAAA-AA
11881225 AGAAAAGGGAAAAAA
1 AGAAAAGGGAAAAAA
11881240 AGA
1 AGA
11881243 GAGAGATGAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 5 0.29
16 12 0.71
ACGTcount: A:0.68, C:0.00, G:0.26, T:0.06
Consensus pattern (15 bp):
AGAAAAGGGAAAAAA
Found at i:11882131 original size:27 final size:28
Alignment explanation
Indices: 11882098--11882191 Score: 90
Period size: 27 Copynumber: 3.5 Consensus size: 28
11882088 AAACAAACAA
*
11882098 CAAAATTCAAAACAAAGGAAAACAGCAG
1 CAAAATTCAAAACAAAGGAAAACACCAG
* * *
11882126 C-AAATTCAAAATAAATGATAACACCAG
1 CAAAATTCAAAACAAAGGAAAACACCAG
*
11882153 CAAAATTC-AAATAAA-GAATAACACCAG
1 CAAAATTCAAAACAAAGGAA-AACACCAG
*
11882180 -AAAGTT-AAAACA
1 CAAAATTCAAAACA
11882192 CATGATTAAT
Statistics
Matches: 56, Mismatches: 7, Indels: 8
0.79 0.10 0.11
Matches are distributed among these distances:
26 11 0.20
27 38 0.68
28 7 0.12
ACGTcount: A:0.60, C:0.17, G:0.10, T:0.14
Consensus pattern (28 bp):
CAAAATTCAAAACAAAGGAAAACACCAG
Found at i:11882930 original size:27 final size:28
Alignment explanation
Indices: 11882900--11882969 Score: 83
Period size: 27 Copynumber: 2.6 Consensus size: 28
11882890 AAAAAAAAAA
*
11882900 TCAAAACAAAGGA-AAACAGCAGCAAA-T
1 TCAAAACAAAGGATAAA-ACCAGCAAATT
*
11882927 TCAAAACAAATGATAAAACCAGCAAATT
1 TCAAAACAAAGGATAAAACCAGCAAATT
*
11882955 TC-AAATAAAGGATAA
1 TCAAAACAAAGGATAA
11882970 CCCCAGAAAG
Statistics
Matches: 37, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
27 31 0.84
28 6 0.16
ACGTcount: A:0.59, C:0.16, G:0.11, T:0.14
Consensus pattern (28 bp):
TCAAAACAAAGGATAAAACCAGCAAATT
Found at i:11882975 original size:27 final size:26
Alignment explanation
Indices: 11882903--11882987 Score: 75
Period size: 27 Copynumber: 3.2 Consensus size: 26
11882893 AAAAAAATCA
*
11882903 AAACAAAGGA-AAACAGCAGCAAATTC
1 AAACAAAGGATAAA-ACCAGCAAATTC
*
11882929 AAAACAAATGATAAAACCAGCAAATTTC
1 -AAACAAAGGATAAAACCAGCAAA-TTC
* **
11882957 AAATAAAGGATAACCCCAG-AAAGTTC
1 AAACAAAGGATAAAACCAGCAAA-TTC
11882983 AAACA
1 AAACA
11882988 CATTCTTCAC
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
26 10 0.21
27 32 0.67
28 6 0.12
ACGTcount: A:0.56, C:0.19, G:0.12, T:0.13
Consensus pattern (26 bp):
AAACAAAGGATAAAACCAGCAAATTC
Found at i:11885847 original size:24 final size:27
Alignment explanation
Indices: 11885814--11885875 Score: 76
Period size: 24 Copynumber: 2.4 Consensus size: 27
11885804 AACAAACAAA
*
11885814 AAAATTCAAAACAAA-G-GACAGCAGC
1 AAAATTCAAAACAAATGAAACAGCAGC
*
11885839 -AAATTCAAAAGAAATGATAACAGCAGC
1 AAAATTCAAAACAAATGA-AACAGCAGC
11885866 AAAATTCAAA
1 AAAATTCAAA
11885876 TAAAGAATTA
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
24 13 0.42
25 1 0.03
27 8 0.26
28 9 0.29
ACGTcount: A:0.58, C:0.16, G:0.13, T:0.13
Consensus pattern (27 bp):
AAAATTCAAAACAAATGAAACAGCAGC
Found at i:11889214 original size:3 final size:3
Alignment explanation
Indices: 11889208--11889244 Score: 56
Period size: 3 Copynumber: 12.3 Consensus size: 3
11889198 AGTTTCCATG
* *
11889208 TCA TCA TCA TCG TCA TCA TCA TCA TCG TCA TCA TCA T
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA T
11889245 GCCGTTGCCT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
3 30 1.00
ACGTcount: A:0.27, C:0.32, G:0.05, T:0.35
Consensus pattern (3 bp):
TCA
Found at i:11889226 original size:15 final size:15
Alignment explanation
Indices: 11889208--11889244 Score: 74
Period size: 15 Copynumber: 2.5 Consensus size: 15
11889198 AGTTTCCATG
11889208 TCATCATCATCGTCA
1 TCATCATCATCGTCA
11889223 TCATCATCATCGTCA
1 TCATCATCATCGTCA
11889238 TCATCAT
1 TCATCAT
11889245 GCCGTTGCCT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 22 1.00
ACGTcount: A:0.27, C:0.32, G:0.05, T:0.35
Consensus pattern (15 bp):
TCATCATCATCGTCA
Found at i:11895286 original size:77 final size:77
Alignment explanation
Indices: 11895159--11895308 Score: 291
Period size: 77 Copynumber: 1.9 Consensus size: 77
11895149 ATAGTATAAG
11895159 ATCTCTTCAAATTTGCACTAGTACCTTGAATCAGAAAGATTCCTACAGAGGATCTTCTGGTTATA
1 ATCTCTTCAAATTTGCACTAGTACCTTGAATCAGAAAGATTCCTACAGAGGATCTTCTGGTTATA
*
11895224 TGTCATGGTAAA
66 TATCATGGTAAA
11895236 ATCTCTTCAAATTTGCACTAGTACCTTGAATCAGAAAGATTCCTACAGAGGATCTTCTGGTTATA
1 ATCTCTTCAAATTTGCACTAGTACCTTGAATCAGAAAGATTCCTACAGAGGATCTTCTGGTTATA
11895301 TATCATGG
66 TATCATGG
11895309 CACATCAGTA
Statistics
Matches: 72, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
77 72 1.00
ACGTcount: A:0.31, C:0.19, G:0.17, T:0.34
Consensus pattern (77 bp):
ATCTCTTCAAATTTGCACTAGTACCTTGAATCAGAAAGATTCCTACAGAGGATCTTCTGGTTATA
TATCATGGTAAA
Found at i:11898785 original size:42 final size:43
Alignment explanation
Indices: 11898738--11898819 Score: 130
Period size: 42 Copynumber: 1.9 Consensus size: 43
11898728 AAGTCACTTG
*
11898738 ACTAGCAATTTGACTCAAA-TATTTGTTTAGAAGCACTCGAGA
1 ACTAGCAATTTGACTCAAACGATTTGTTTAGAAGCACTCGAGA
*
11898780 ACTAGCAATTTGATTCAAACCGATTTGTTTAGAAGCACTC
1 ACTAGCAATTTGACTCAAA-CGATTTGTTTAGAAGCACTC
11898820 AAGAGCTTCC
Statistics
Matches: 36, Mismatches: 2, Indels: 2
0.90 0.05 0.05
Matches are distributed among these distances:
42 18 0.50
44 18 0.50
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (43 bp):
ACTAGCAATTTGACTCAAACGATTTGTTTAGAAGCACTCGAGA
Found at i:11903690 original size:25 final size:24
Alignment explanation
Indices: 11903644--11903691 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 24
11903634 TTGTGAATGT
11903644 AGTCCTATACTTTTAATCAATTTTG
1 AGTCCTATACTTTTAA-CAATTTTG
11903669 AGTCCTTATACTTTTCAA-AATTT
1 AGTCC-TATACTTTT-AACAATTT
11903692 AAAATTTCAA
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
25 10 0.48
26 9 0.43
27 2 0.10
ACGTcount: A:0.29, C:0.17, G:0.06, T:0.48
Consensus pattern (24 bp):
AGTCCTATACTTTTAACAATTTTG
Found at i:11905071 original size:2 final size:2
Alignment explanation
Indices: 11905060--11905089 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
11905050 AAAAACAAAC
11905060 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
11905090 CAAACATCTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
1 1 0.04
2 26 0.96
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11906206 original size:59 final size:58
Alignment explanation
Indices: 11906131--11906300 Score: 218
Period size: 57 Copynumber: 2.9 Consensus size: 58
11906121 ACAAGCTTAG
* * * * *
11906131 GTACCAAATTAGAAAAAAAGTTTCAAGTTTAGGTACCACATTGGACCAAAAAAACTAAT
1 GTACCAAATTAGAAAAAAAGTGTCAAGTTCAGGTACCAAATTGGACAAAAAAAAAT-AT
* * *
11906190 GTACTAAATTAG-AAAAAAGTGTCAAGTTCAGGTATCAAATTTGACAAAAAAAAATAT
1 GTACCAAATTAGAAAAAAAGTGTCAAGTTCAGGTACCAAATTGGACAAAAAAAAATAT
* * *
11906247 GTACCAAATTAGAAAAAAA-TGTCAAGTTCATGTGCCAATTTGGACAAAAAAAAA
1 GTACCAAATTAGAAAAAAAGTGTCAAGTTCAGGTACCAAATTGGACAAAAAAAAA
11906301 CTTAGATATC
Statistics
Matches: 96, Mismatches: 14, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
57 43 0.45
58 42 0.44
59 11 0.11
ACGTcount: A:0.49, C:0.12, G:0.14, T:0.24
Consensus pattern (58 bp):
GTACCAAATTAGAAAAAAAGTGTCAAGTTCAGGTACCAAATTGGACAAAAAAAAATAT
Found at i:11906249 original size:57 final size:57
Alignment explanation
Indices: 11906131--11906345 Score: 211
Period size: 57 Copynumber: 3.7 Consensus size: 57
11906121 ACAAGCTTAG
* * * * * *
11906131 GTACCAAATTAGAAAAAAAGTTTCAAGTTTAGGTACCACATTGGACCAAAAAAACTAAT
1 GTACCAAATTAG-AAAAAAGTGTCAAGTTCAGGTACCAAATTTGACAAAAAAAAAT-AT
* *
11906190 GTACTAAATTAGAAAAAAGTGTCAAGTTCAGGTATCAAATTTGACAAAAAAAAATAT
1 GTACCAAATTAGAAAAAAGTGTCAAGTTCAGGTACCAAATTTGACAAAAAAAAATAT
* * *
11906247 GTACCAAATTAGAAAAAAATGTCAAGTTCATGTGCC-AATTTGGACAAAAAAAAACT-T
1 GTACCAAATTAGAAAAAAGTGTCAAGTTCAGGTACCAAATTT-GACAAAAAAAAA-TAT
* * * *
11906304 AGATATCTAAATAAG-AAAAAGTGTCAAATTCATGTACCAAAT
1 -G-TA-CCAAATTAGAAAAAAGTGTCAAGTTCAGGTACCAAAT
11906346 AATATATTAA
Statistics
Matches: 132, Mismatches: 18, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
56 5 0.04
57 46 0.35
58 38 0.29
59 33 0.25
60 10 0.08
ACGTcount: A:0.49, C:0.13, G:0.13, T:0.25
Consensus pattern (57 bp):
GTACCAAATTAGAAAAAAGTGTCAAGTTCAGGTACCAAATTTGACAAAAAAAAATAT
Found at i:11906323 original size:116 final size:116
Alignment explanation
Indices: 11906131--11906345 Score: 276
Period size: 116 Copynumber: 1.9 Consensus size: 116
11906121 ACAAGCTTAG
* * * *
11906131 GTACCAAATTAGAAAAAAAGTTTCAAGTTTAGGTACCACATTGGACCAAAAAAACTAATGTACTA
1 GTACCAAATTAGAAAAAAAGTGTCAAGTTCAGGTACCACATTGGACAAAAAAAACTAATATACTA
* * *
11906196 AATTAGAAAAAAGTGTCAAGTTCAGGTATCAAATTTGACAAAAAAAAATAT
66 AATAAGAAAAAAGTGTCAAATTCAGGTACCAAATTTGACAAAAAAAAATAT
* *
11906247 GTACCAAATTAGAAAAAAA-TGTCAAGTTCATGTGCCA-ATTTGGACAAAAAAAAACTTAGATAT
1 GTACCAAATTAGAAAAAAAGTGTCAAGTTCAGGTACCACA-TTGGAC-AAAAAAAAC-TA-ATAT
*
11906310 -CTAAATAAG-AAAAAGTGTCAAATTCATGTACCAAAT
62 ACTAAATAAGAAAAAAGTGTCAAATTCAGGTACCAAAT
11906346 AATATATTAA
Statistics
Matches: 85, Mismatches: 10, Indels: 8
0.83 0.10 0.08
Matches are distributed among these distances:
114 1 0.01
115 20 0.24
116 51 0.60
117 10 0.12
118 3 0.04
ACGTcount: A:0.49, C:0.13, G:0.13, T:0.25
Consensus pattern (116 bp):
GTACCAAATTAGAAAAAAAGTGTCAAGTTCAGGTACCACATTGGACAAAAAAAACTAATATACTA
AATAAGAAAAAAGTGTCAAATTCAGGTACCAAATTTGACAAAAAAAAATAT
Found at i:11907213 original size:29 final size:31
Alignment explanation
Indices: 11907166--11907232 Score: 75
Period size: 29 Copynumber: 2.2 Consensus size: 31
11907156 TTGATTTAAT
* * *
11907166 GTGCAATTGTATACATG-AACTTTAATT-TG
1 GTGCAATTATACACATGAAACTCTAATTGTG
*
11907195 GTGCAATTATACACGTGAAACTCTAATTGTG
1 GTGCAATTATACACATGAAACTCTAATTGTG
*
11907226 GTTCAAT
1 GTGCAAT
11907233 ACTTGAAACT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
29 14 0.45
30 9 0.29
31 8 0.26
ACGTcount: A:0.31, C:0.13, G:0.18, T:0.37
Consensus pattern (31 bp):
GTGCAATTATACACATGAAACTCTAATTGTG
Found at i:11909873 original size:28 final size:29
Alignment explanation
Indices: 11909826--11909894 Score: 95
Period size: 29 Copynumber: 2.4 Consensus size: 29
11909816 GTTATCAGGG
**
11909826 TTGCTCACACAAGTTAACA-TTTATGAAT
1 TTGCTCACACAAACTAACATTTTATGAAT
*
11909854 TTGCTCACACAAACTGACATTTTATGAAT
1 TTGCTCACACAAACTAACATTTTATGAAT
*
11909883 TTGCTCATACAA
1 TTGCTCACACAA
11909895 GCGGACATCG
Statistics
Matches: 36, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
28 16 0.44
29 20 0.56
ACGTcount: A:0.35, C:0.20, G:0.10, T:0.35
Consensus pattern (29 bp):
TTGCTCACACAAACTAACATTTTATGAAT
Found at i:11909901 original size:29 final size:29
Alignment explanation
Indices: 11909845--11909902 Score: 89
Period size: 29 Copynumber: 2.0 Consensus size: 29
11909835 CAAGTTAACA
*
11909845 TTTATGAATTTGCTCACACAAACTGACAT
1 TTTATGAATTTGCTCACACAAACGGACAT
* *
11909874 TTTATGAATTTGCTCATACAAGCGGACAT
1 TTTATGAATTTGCTCACACAAACGGACAT
11909903 CGTATCGAGG
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
29 26 1.00
ACGTcount: A:0.33, C:0.19, G:0.14, T:0.34
Consensus pattern (29 bp):
TTTATGAATTTGCTCACACAAACGGACAT
Found at i:11917098 original size:4 final size:4
Alignment explanation
Indices: 11917091--11917120 Score: 51
Period size: 4 Copynumber: 7.2 Consensus size: 4
11917081 TTATATTAAT
11917091 TAAA TAAA GTAAA TAAA TAAA TAAA TAAA T
1 TAAA TAAA -TAAA TAAA TAAA TAAA TAAA T
11917121 TAAAAAGTTG
Statistics
Matches: 25, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
4 21 0.84
5 4 0.16
ACGTcount: A:0.70, C:0.00, G:0.03, T:0.27
Consensus pattern (4 bp):
TAAA
Found at i:11918635 original size:47 final size:47
Alignment explanation
Indices: 11918538--11918639 Score: 116
Period size: 47 Copynumber: 2.2 Consensus size: 47
11918528 CCTTGTATGT
** ** * *
11918538 CGTACTGTTACTGTTACTTCGGATTATTCCGATGGGGTACTCTGTAC
1 CGTACTGTTACTGTTACTTCGGATTAGGCCGATAAGGCACTATGTAC
* *
11918585 CGTACTGTTACTGTTTACTTCGGCTT-GGCCGATAAGGCACTATGTGC
1 CGTACTGTTACTG-TTACTTCGGATTAGGCCGATAAGGCACTATGTAC
11918632 CGTACTGT
1 CGTACTGT
11918640 ACTAGTGTGA
Statistics
Matches: 46, Mismatches: 8, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
47 35 0.76
48 11 0.24
ACGTcount: A:0.17, C:0.23, G:0.25, T:0.36
Consensus pattern (47 bp):
CGTACTGTTACTGTTACTTCGGATTAGGCCGATAAGGCACTATGTAC
Found at i:11918748 original size:36 final size:36
Alignment explanation
Indices: 11918708--11918811 Score: 118
Period size: 36 Copynumber: 2.9 Consensus size: 36
11918698 TAAATAAAAG
* * *
11918708 TACTGAATGACTGACTGTTACTGAATAATTGATCGT
1 TACTGAATAACTGATTGCTACTGAATAATTGATCGT
* ** * * *
11918744 TACTGAATAACTGATTGCTATTGAGCAAATAATTGT
1 TACTGAATAACTGATTGCTACTGAATAATTGATCGT
*
11918780 TACTGAATAACTAATTGCTACTGAATAATTGA
1 TACTGAATAACTGATTGCTACTGAATAATTGA
11918812 ATGTTGCTAA
Statistics
Matches: 53, Mismatches: 15, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
36 53 1.00
ACGTcount: A:0.36, C:0.12, G:0.16, T:0.36
Consensus pattern (36 bp):
TACTGAATAACTGATTGCTACTGAATAATTGATCGT
Found at i:11918794 original size:18 final size:18
Alignment explanation
Indices: 11918708--11918807 Score: 92
Period size: 18 Copynumber: 5.6 Consensus size: 18
11918698 TAAATAAAAG
* *
11918708 TACTGAATGACTGACTGT
1 TACTGAATAACTGATTGT
* *
11918726 TACTGAATAATTGATCGT
1 TACTGAATAACTGATTGT
*
11918744 TACTGAATAACTGATTGC
1 TACTGAATAACTGATTGT
* ** * *
11918762 TATTGAGCAAATAATTGT
1 TACTGAATAACTGATTGT
* *
11918780 TACTGAATAACTAATTGC
1 TACTGAATAACTGATTGT
11918798 TACTGAATAA
1 TACTGAATAA
11918808 TTGAATGTTG
Statistics
Matches: 64, Mismatches: 18, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
18 64 1.00
ACGTcount: A:0.36, C:0.13, G:0.16, T:0.35
Consensus pattern (18 bp):
TACTGAATAACTGATTGT
Found at i:11918854 original size:16 final size:17
Alignment explanation
Indices: 11918827--11918859 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
11918817 GCTAAATGAA
11918827 ACTGATAAAATAGTGAC
1 ACTGATAAAATAGTGAC
*
11918844 ACTGA-AAAATATTGAC
1 ACTGATAAAATAGTGAC
11918860 TGATATTGAG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 10 0.67
17 5 0.33
ACGTcount: A:0.48, C:0.12, G:0.15, T:0.24
Consensus pattern (17 bp):
ACTGATAAAATAGTGAC
Found at i:11920642 original size:46 final size:46
Alignment explanation
Indices: 11920577--11920941 Score: 446
Period size: 46 Copynumber: 8.0 Consensus size: 46
11920567 TTATCTTCGA
* * * * * *
11920577 CATGATGCCATAGTGTCTTTCAACTATAGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATGT
* ***
11920623 CAGGTTGCCATGGTATCTTTCAACCATGGTCTTGTTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
* ** ** **
11920669 TACATTGCCATGGTATCTTTCAACCATGGTCTTATTCA-TTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
** *
11920714 CATGTTGCCATGGTATCTTTCAACCATGGTCTTATTCTTTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
** * * *
11920760 CACATTGCCATGGTGTCTTTTAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
* *
11920806 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
* *
11920852 CATGTTGCCATGGTGTCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
11920898 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
11920942 TTCAGAAAGC
Statistics
Matches: 285, Mismatches: 32, Indels: 4
0.89 0.10 0.01
Matches are distributed among these distances:
45 43 0.15
46 242 0.85
ACGTcount: A:0.21, C:0.24, G:0.15, T:0.41
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATGT
Found at i:11924514 original size:26 final size:26
Alignment explanation
Indices: 11924485--11924545 Score: 88
Period size: 26 Copynumber: 2.3 Consensus size: 26
11924475 TCCTCTCTCA
11924485 AGCCATATAA-CAGGAAGCTCACAAAG
1 AGCCAT-TAATCAGGAAGCTCACAAAG
*
11924511 AGCCATTAATCGGGAAGCTCACAAAG
1 AGCCATTAATCAGGAAGCTCACAAAG
11924537 AGCCTATTA
1 AGCC-ATTA
11924546 GGAAGCTCTT
Statistics
Matches: 32, Mismatches: 1, Indels: 3
0.89 0.03 0.08
Matches are distributed among these distances:
25 3 0.09
26 25 0.78
27 4 0.12
ACGTcount: A:0.41, C:0.23, G:0.20, T:0.16
Consensus pattern (26 bp):
AGCCATTAATCAGGAAGCTCACAAAG
Found at i:11924553 original size:23 final size:23
Alignment explanation
Indices: 11924496--11924553 Score: 73
Period size: 26 Copynumber: 2.4 Consensus size: 23
11924486 GCCATATAAC
11924496 AGGAAGCTCACAAAGAGCCATTA
1 AGGAAGCTCACAAAGAGCCATTA
11924519 ATCGGGAAGCTCACAAAGAGCCTATT-
1 A---GGAAGCTCACAAAGAGCC-ATTA
11924545 AGGAAGCTC
1 AGGAAGCTC
11924554 TTCCGGGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 8
0.79 0.00 0.21
Matches are distributed among these distances:
23 9 0.29
26 19 0.61
27 3 0.10
ACGTcount: A:0.38, C:0.22, G:0.24, T:0.16
Consensus pattern (23 bp):
AGGAAGCTCACAAAGAGCCATTA
Found at i:11929484 original size:21 final size:21
Alignment explanation
Indices: 11929446--11929485 Score: 55
Period size: 21 Copynumber: 1.9 Consensus size: 21
11929436 GAATTTTCAA
*
11929446 AAATTTTAAGAAAGATTAATT
1 AAATTTTAAGAAAAATTAATT
11929467 AAATTTTCAA-AAAAATTAA
1 AAATTTT-AAGAAAAATTAA
11929486 AAAGTACAAT
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
21 15 0.88
22 2 0.12
ACGTcount: A:0.57, C:0.03, G:0.05, T:0.35
Consensus pattern (21 bp):
AAATTTTAAGAAAAATTAATT
Found at i:11929499 original size:30 final size:31
Alignment explanation
Indices: 11929437--11929499 Score: 76
Period size: 31 Copynumber: 2.1 Consensus size: 31
11929427 AATTAATGAG
** *
11929437 AATTTTCAAAAATTTTAAGAAAGATTAATTA
1 AATTTTCAAAAAAATTAAGAAAGATCAATTA
11929468 AATTTTCAAAAAAATTAA-AAAG-TACAATTA
1 AATTTTCAAAAAAATTAAGAAAGAT-CAATTA
11929498 AA
1 AA
11929500 AATTGAAAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 1 0.04
30 11 0.39
31 16 0.57
ACGTcount: A:0.57, C:0.05, G:0.05, T:0.33
Consensus pattern (31 bp):
AATTTTCAAAAAAATTAAGAAAGATCAATTA
Found at i:11933967 original size:44 final size:41
Alignment explanation
Indices: 11933868--11933986 Score: 141
Period size: 44 Copynumber: 2.8 Consensus size: 41
11933858 ACAAATATCA
* *
11933868 ATGCCACTGTCCCAGATAGGGTCTTACACGAAATCTAATATG
1 ATGCCAC-GTCCCAGACATGGTCTTACACGAAATCTAATATG
*
11933910 ATGCCGATGTCCCAGACATGGTCTTACACGTAAATCATAAGT-TG
1 ATGCC-ACGTCCCAGACATGGTCTTACACG-AAATC-TAA-TATG
*
11933954 ATGCCAACGTCCCAGACGTGGTCTTACACGAAA
1 ATGCC-ACGTCCCAGACATGGTCTTACACGAAA
11933987 ACACATATTG
Statistics
Matches: 67, Mismatches: 6, Indels: 7
0.84 0.08 0.09
Matches are distributed among these distances:
42 25 0.37
43 9 0.13
44 32 0.48
45 1 0.01
ACGTcount: A:0.30, C:0.25, G:0.20, T:0.24
Consensus pattern (41 bp):
ATGCCACGTCCCAGACATGGTCTTACACGAAATCTAATATG
Found at i:11934575 original size:23 final size:23
Alignment explanation
Indices: 11934549--11934594 Score: 92
Period size: 23 Copynumber: 2.0 Consensus size: 23
11934539 TTCATCAAAA
11934549 TTTCAAAGACAAAACATGTTAAC
1 TTTCAAAGACAAAACATGTTAAC
11934572 TTTCAAAGACAAAACATGTTAAC
1 TTTCAAAGACAAAACATGTTAAC
11934595 CCAACATCAA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.48, C:0.17, G:0.09, T:0.26
Consensus pattern (23 bp):
TTTCAAAGACAAAACATGTTAAC
Found at i:11936213 original size:20 final size:22
Alignment explanation
Indices: 11936178--11936218 Score: 68
Period size: 20 Copynumber: 2.0 Consensus size: 22
11936168 GGGACTAAAC
11936178 TGAAATCTTATAAAATTTTTCG
1 TGAAATCTTATAAAATTTTTCG
11936200 TGAAAT-TT-TAAAATTTTTC
1 TGAAATCTTATAAAATTTTTC
11936219 TTAAATACAG
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 11 0.58
21 2 0.11
22 6 0.32
ACGTcount: A:0.37, C:0.07, G:0.07, T:0.49
Consensus pattern (22 bp):
TGAAATCTTATAAAATTTTTCG
Found at i:11937522 original size:24 final size:23
Alignment explanation
Indices: 11937493--11937545 Score: 70
Period size: 24 Copynumber: 2.3 Consensus size: 23
11937483 AGCCTTGGAA
* * *
11937493 CGGGAAGCTCACACAGAGCCATTT
1 CGGGAAGCCCACAAAGAGCC-TAT
11937517 CGGGAAGCCCACAAAGAGCCTAT
1 CGGGAAGCCCACAAAGAGCCTAT
11937540 CGGGAA
1 CGGGAA
11937546 TTTTATCTGG
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 8 0.31
24 18 0.69
ACGTcount: A:0.32, C:0.28, G:0.28, T:0.11
Consensus pattern (23 bp):
CGGGAAGCCCACAAAGAGCCTAT
Found at i:11937642 original size:23 final size:23
Alignment explanation
Indices: 11937610--11937655 Score: 65
Period size: 23 Copynumber: 2.0 Consensus size: 23
11937600 CAAAGAACCA
* *
11937610 TATCGGGAAGCTCACGAAGAGCC
1 TATCGAGAAGCTCAAGAAGAGCC
*
11937633 TATCGAGAAGCTCAATAAGAGCC
1 TATCGAGAAGCTCAAGAAGAGCC
11937656 ATGTAACGGG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.35, C:0.24, G:0.26, T:0.15
Consensus pattern (23 bp):
TATCGAGAAGCTCAAGAAGAGCC
Found at i:11937766 original size:26 final size:25
Alignment explanation
Indices: 11937710--11937779 Score: 63
Period size: 27 Copynumber: 2.7 Consensus size: 25
11937700 CGAGACTATC
*
11937710 GGGAAGCTCACAAAGAGTCAATTTAAT
1 GGGAAGCTCA-TAAGAG-CAATTTAAT
*
11937737 GGGAAGCTCATGAAGAGCCATTT-AT
1 GGGAAGCTCAT-AAGAGCAATTTAAT
11937762 AGGGATA-CTCATAAGAGC
1 -GGGA-AGCTCATAAGAGC
11937780 TAAGGTGTGT
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
25 8 0.21
26 14 0.37
27 16 0.42
ACGTcount: A:0.37, C:0.16, G:0.26, T:0.21
Consensus pattern (25 bp):
GGGAAGCTCATAAGAGCAATTTAAT
Found at i:11946312 original size:3 final size:3
Alignment explanation
Indices: 11946306--11946335 Score: 51
Period size: 3 Copynumber: 10.0 Consensus size: 3
11946296 ACAACAACAA
*
11946306 CAG CAG CAG CAG CAG CAG CAG CAG CTG CAG
1 CAG CAG CAG CAG CAG CAG CAG CAG CAG CAG
11946336 ATGCCTCATT
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.30, C:0.33, G:0.33, T:0.03
Consensus pattern (3 bp):
CAG
Found at i:11949462 original size:43 final size:43
Alignment explanation
Indices: 11949372--11949529 Score: 151
Period size: 43 Copynumber: 3.7 Consensus size: 43
11949362 ACCGAGATGT
* * * * * *
11949372 GATTACATGTAAGACCATGTTTGGGACATTGGAATTG-TATTGT
1 GATTACGTGTAAGACCATGTCTGGGATATTGGCATCGATA-TGC
*
11949415 GATTACGTGTAAGACCATGTCTGGGATATTTGCATC-ATTAAT-C
1 GATTACGTGTAAGACCATGTCTGGGATATTGGCATCGA-T-ATGC
* * *
11949458 GATTACGTGTAAGACCCTGTCTGGGATAGTGGCATCGATATGT
1 GATTACGTGTAAGACCATGTCTGGGATATTGGCATCGATATGC
* * *
11949501 GATAACATGTAAGACCATATCTGGGATAT
1 GATTACGTGTAAGACCATGTCTGGGATAT
11949530 AGCATTGTGC
Statistics
Matches: 94, Mismatches: 16, Indels: 10
0.78 0.13 0.08
Matches are distributed among these distances:
42 2 0.02
43 88 0.94
44 3 0.03
45 1 0.01
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.33
Consensus pattern (43 bp):
GATTACGTGTAAGACCATGTCTGGGATATTGGCATCGATATGC
Found at i:11949517 original size:86 final size:86
Alignment explanation
Indices: 11949372--11949529 Score: 210
Period size: 86 Copynumber: 1.8 Consensus size: 86
11949362 ACCGAGATGT
* * * * * *
11949372 GATTACATGTAAGACCATGTTTGGGACATTGGAATTGTATTGTGATTACGTGTAAGACCATGTCT
1 GATTACATGTAAGACCATGTCTGGGACAGTGGAATCGTATTGTGATAACATGTAAGACCATATCT
11949437 GGGATATTTGCATCATTAATC
66 GGGATATTTGCATCATTAATC
* * * *
11949458 GATTACGTGTAAGACCCTGTCTGGGATAGTGGCATCG-ATATGTGATAACATGTAAGACCATATC
1 GATTACATGTAAGACCATGTCTGGGACAGTGGAATCGTAT-TGTGATAACATGTAAGACCATATC
11949522 TGGGATAT
65 TGGGATAT
11949530 AGCATTGTGC
Statistics
Matches: 61, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
85 2 0.03
86 59 0.97
ACGTcount: A:0.28, C:0.14, G:0.25, T:0.33
Consensus pattern (86 bp):
GATTACATGTAAGACCATGTCTGGGACAGTGGAATCGTATTGTGATAACATGTAAGACCATATCT
GGGATATTTGCATCATTAATC
Found at i:11950425 original size:27 final size:26
Alignment explanation
Indices: 11950365--11950426 Score: 63
Period size: 27 Copynumber: 2.3 Consensus size: 26
11950355 ATTTTATTTT
11950365 ATTTTATTAGGATAATTAATATTAAG
1 ATTTTATTAGGATAATTAATATTAAG
* * *
11950391 ATAATTATTAGGATTATTCAA-ATTTAGG
1 AT-TTTATTAGGATAATT-AATA-TTAAG
11950419 ATTTTATT
1 ATTTTATT
11950427 TTAATTATCT
Statistics
Matches: 29, Mismatches: 4, Indels: 5
0.76 0.11 0.13
Matches are distributed among these distances:
26 2 0.07
27 19 0.66
28 8 0.28
ACGTcount: A:0.39, C:0.02, G:0.11, T:0.48
Consensus pattern (26 bp):
ATTTTATTAGGATAATTAATATTAAG
Found at i:11954120 original size:6 final size:6
Alignment explanation
Indices: 11954113--11954205 Score: 95
Period size: 6 Copynumber: 15.7 Consensus size: 6
11954103 CCGATCTTTC
* ** *
11954113 TTTTTC TTTTTA TTTTTA TTTTTA TTTTTA TTTATTA TTTTCC TTTCT-
1 TTTTTA TTTTTA TTTTTA TTTTTA TTTTTA TTT-TTA TTTTTA TTTTTA
11954161 TTTTTA TTTATTA TTTATTA -TTTTA -TTTTA TTTTTA -TTTTA TTTT
1 TTTTTA TTT-TTA TTT-TTA TTTTTA TTTTTA TTTTTA TTTTTA TTTT
11954206 AGTTAAATAT
Statistics
Matches: 76, Mismatches: 6, Indels: 10
0.83 0.07 0.11
Matches are distributed among these distances:
5 17 0.22
6 43 0.57
7 16 0.21
ACGTcount: A:0.16, C:0.04, G:0.00, T:0.80
Consensus pattern (6 bp):
TTTTTA
Found at i:11954195 original size:31 final size:29
Alignment explanation
Indices: 11954120--11954204 Score: 109
Period size: 30 Copynumber: 2.9 Consensus size: 29
11954110 TTCTTTTTCT
11954120 TTTTATTTTTATTTTTATTTTTATTTATTA
1 TTTTATTTTT-TTTTTATTTTTATTTATTA
* *
11954150 TTTTCCTTTCTTTTTTATTTATTATTTATTA
1 TTTT-ATTTTTTTTTTATTT-TTATTTATTA
*
11954181 TTTTATTTTATTTTTA-TTTTATTT
1 TTTTATTTTTTTTTTATTTTTATTT
11954205 TAGTTAAATA
Statistics
Matches: 48, Mismatches: 5, Indels: 6
0.81 0.08 0.10
Matches are distributed among these distances:
28 6 0.12
29 2 0.04
30 22 0.46
31 18 0.38
ACGTcount: A:0.18, C:0.04, G:0.00, T:0.79
Consensus pattern (29 bp):
TTTTATTTTTTTTTTATTTTTATTTATTA
Found at i:11955509 original size:9 final size:9
Alignment explanation
Indices: 11955497--11955537 Score: 55
Period size: 9 Copynumber: 4.4 Consensus size: 9
11955487 ATAAAATTTA
11955497 AAAAAAAAG
1 AAAAAAAAG
11955506 AAAAAAAAG
1 AAAAAAAAG
11955515 AAAAAAAAAG
1 -AAAAAAAAG
* *
11955525 AAGAAGAAG
1 AAAAAAAAG
11955534 AAAA
1 AAAA
11955538 TAAGTACTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
9 19 0.68
10 9 0.32
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (9 bp):
AAAAAAAAG
Found at i:11955509 original size:10 final size:10
Alignment explanation
Indices: 11955496--11955526 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
11955486 AATAAAATTT
11955496 AAAAAAAAAG
1 AAAAAAAAAG
11955506 -AAAAAAAAG
1 AAAAAAAAAG
11955515 AAAAAAAAAG
1 AAAAAAAAAG
11955525 AA
1 AA
11955527 GAAGAAGAAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
9 9 0.45
10 11 0.55
ACGTcount: A:0.90, C:0.00, G:0.10, T:0.00
Consensus pattern (10 bp):
AAAAAAAAAG
Found at i:11955518 original size:19 final size:19
Alignment explanation
Indices: 11955496--11955537 Score: 66
Period size: 19 Copynumber: 2.2 Consensus size: 19
11955486 AATAAAATTT
11955496 AAAAAAAAAGAAAAAAAAG
1 AAAAAAAAAGAAAAAAAAG
* *
11955515 AAAAAAAAAGAAGAAGAAG
1 AAAAAAAAAGAAAAAAAAG
11955534 AAAA
1 AAAA
11955538 TAAGTACTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.86, C:0.00, G:0.14, T:0.00
Consensus pattern (19 bp):
AAAAAAAAAGAAAAAAAAG
Found at i:11965637 original size:28 final size:28
Alignment explanation
Indices: 11965603--11965684 Score: 110
Period size: 28 Copynumber: 2.9 Consensus size: 28
11965593 GCCTTGTTTT
*
11965603 CACACGGCCTGTGACACGAGCGTGTTCC
1 CACACGGCCTGTGACACGGGCGTGTTCC
*
11965631 CACACGGCCTGTGACACGGGCATGTTCC
1 CACACGGCCTGTGACACGGGCGTGTTCC
* * *
11965659 TACATGGCCTGTTCACACGGGCGTGT
1 CACACGGCCTG-TGACACGGGCGTGT
11965685 GACCCTTTAA
Statistics
Matches: 47, Mismatches: 6, Indels: 1
0.87 0.11 0.02
Matches are distributed among these distances:
28 35 0.74
29 12 0.26
ACGTcount: A:0.17, C:0.33, G:0.29, T:0.21
Consensus pattern (28 bp):
CACACGGCCTGTGACACGGGCGTGTTCC
Found at i:11965740 original size:31 final size:32
Alignment explanation
Indices: 11965681--11965743 Score: 117
Period size: 32 Copynumber: 2.0 Consensus size: 32
11965671 TCACACGGGC
11965681 GTGTGACCCTTTAATGCAAGAAAATTTTTTTA
1 GTGTGACCCTTTAATGCAAGAAAATTTTTTTA
*
11965713 GTGTGACCCTTTAATGCAAGAAATTTTTTTT
1 GTGTGACCCTTTAATGCAAGAAAATTTTTTT
11965744 TATGTTTTCC
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.29, C:0.13, G:0.16, T:0.43
Consensus pattern (32 bp):
GTGTGACCCTTTAATGCAAGAAAATTTTTTTA
Found at i:11967321 original size:28 final size:29
Alignment explanation
Indices: 11967273--11967328 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 29
11967263 CGACTGATCA
* * *
11967273 ATAATAATTAAATAAATAATTTTAAAATC
1 ATAAAAATTAAATAAAAAATTTAAAAATC
11967302 ATAAAAATT-AATAAAAAATTTAAAAAT
1 ATAAAAATTAAATAAAAAATTTAAAAAT
11967329 TGGTTCAGTC
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
28 16 0.67
29 8 0.33
ACGTcount: A:0.64, C:0.02, G:0.00, T:0.34
Consensus pattern (29 bp):
ATAAAAATTAAATAAAAAATTTAAAAATC
Found at i:11971424 original size:78 final size:77
Alignment explanation
Indices: 11971255--11971849 Score: 773
Period size: 78 Copynumber: 7.7 Consensus size: 77
11971245 AAATACTTAA
* * * * * *
11971255 AAGGTCAAATATTATAATATATTTCTTCTAATCTCGACATTCCCCACAAGTTAATTGGATCCTAA
1 AAGGTCAAAGATTACAACATATTTCTTCTAATCTCGACACTCCCCACAAGTTAACTGGATCTTAA
*
11971320 TATAAATTACTT
66 TATCAATTACTT
* * * * * * *
11971332 AAGGTCAAATATTACAACATATTTCTTTTAATCTCGATACTCTCTCATAAGCTAACTGGATTTTA
1 AAGGTCAAAGATTACAACATATTTCTTCTAATCTCGACACTC-CCCACAAGTTAACTGGATCTTA
*
11971397 ATATCAATTAATT
65 ATATCAATTACTT
* *
11971410 GAGGTCAAAGATTACAACATATTTCTTCTAATCTCGACACTCCCCCACAAGTTAATTGGATCTTA
1 AAGGTCAAAGATTACAACATATTTCTTCTAATCTCGACACT-CCCCACAAGTTAACTGGATCTTA
11971475 ATATCAATTACTT
65 ATATCAATTACTT
* * **
11971488 AAGGTCAAAGATTACAACAAATTTCTTCTAATCTCGACACTCCCCACAAGTTAACTAGATCCCAA
1 AAGGTCAAAGATTACAACATATTTCTTCTAATCTCGACACTCCCCACAAGTTAACTGGATCTTAA
11971553 TATCAATTACTT
66 TATCAATTACTT
* * * * *
11971565 AAGGTCAAAGATTTCAACATATTTCTTTTAATCTCGACACTCCCCCATAAGCTAACTGGACCTTA
1 AAGGTCAAAGATTACAACATATTTCTTCTAATCTCGACACT-CCCCACAAGTTAACTGGATCTTA
11971630 ATATCAATTACTT
65 ATATCAATTACTT
* ** *
11971643 AAGGTCAAAGATTACAACATATTTC-TCTTAGTCTCGACTTTACCCCACAAGTTAACTGGATTTT
1 AAGGTCAAAGATTACAACATATTTCTTC-TAATCTCGACACT-CCCCACAAGTTAACTGGATCTT
11971707 AATATCAATTACTT
64 AATATCAATTACTT
* * * * *
11971721 AAGGTCAAAGATTACAACATATTTCTTCTAATATCGACACTTCCC-CATGTTAACTAGATCCTAA
1 AAGGTCAAAGATTACAACATATTTCTTCTAATCTCGACACTCCCCACAAGTTAACTGGATCTTAA
*
11971785 TATCAATTAGTT
66 TATCAATTACTT
*
11971797 AAGGTCAAAGATTACAACATATTTCTT-TCAATCTCAACACTCCCCCACAAGTT
1 AAGGTCAAAGATTACAACATATTTCTTCT-AATCTCGACACT-CCCCACAAGTT
11971850 GGTGTGTAGA
Statistics
Matches: 448, Mismatches: 62, Indels: 15
0.85 0.12 0.03
Matches are distributed among these distances:
75 1 0.00
76 63 0.14
77 114 0.25
78 267 0.60
79 3 0.01
ACGTcount: A:0.35, C:0.22, G:0.09, T:0.34
Consensus pattern (77 bp):
AAGGTCAAAGATTACAACATATTTCTTCTAATCTCGACACTCCCCACAAGTTAACTGGATCTTAA
TATCAATTACTT
Found at i:11971591 original size:155 final size:156
Alignment explanation
Indices: 11971255--11971849 Score: 783
Period size: 155 Copynumber: 3.8 Consensus size: 156
11971245 AAATACTTAA
* * * * *
11971255 AAGGTCAAATATTATAATATATTTCTTCTAATCTCGACA-TTCCCCACAAGTTAATTGGATCCTA
1 AAGGTCAAAGATTACAACATATTTCTTCTAATCTCGACACTCCCCCACAAGTTAACTGGATCCTA
* * * * * *
11971319 ATATAAATTACTTAAGGTCAAATATTACAACATATTTCTTTTAATCTCGATACT-CTCTCATAAG
66 ATATCAATTACTTAAGGTCAAAGATTACAACATATTTCTTCTAATCTCGACACTAC-CCCACAAG
* *
11971383 CTAACTGGATTTTAATATCAATTAATT
130 TTAACTGGATTTTAATATCAATTACTT
* * *
11971410 GAGGTCAAAGATTACAACATATTTCTTCTAATCTCGACACTCCCCCACAAGTTAATTGGATCTTA
1 AAGGTCAAAGATTACAACATATTTCTTCTAATCTCGACACTCCCCCACAAGTTAACTGGATCCTA
*
11971475 ATATCAATTACTTAAGGTCAAAGATTACAACAAATTTCTTCTAATCTCGACACT-CCCCACAAGT
66 ATATCAATTACTTAAGGTCAAAGATTACAACATATTTCTTCTAATCTCGACACTACCCCACAAGT
* ***
11971539 TAACTAGATCCCAATATCAATTACTT
131 TAACTGGATTTTAATATCAATTACTT
* * * *
11971565 AAGGTCAAAGATTTCAACATATTTCTTTTAATCTCGACACTCCCCCATAAGCTAACTGGA-CCTT
1 AAGGTCAAAGATTACAACATATTTCTTCTAATCTCGACACTCCCCCACAAGTTAACTGGATCC-T
* **
11971629 AATATCAATTACTTAAGGTCAAAGATTACAACATATTTC-TCTTAGTCTCGACTTTACCCCACAA
65 AATATCAATTACTTAAGGTCAAAGATTACAACATATTTCTTC-TAATCTCGACACTACCCCACAA
11971693 GTTAACTGGATTTTAATATCAATTACTT
129 GTTAACTGGATTTTAATATCAATTACTT
* * * *
11971721 AAGGTCAAAGATTACAACATATTTCTTCTAATATCGACACT-TCCC-CATGTTAACTAGATCCTA
1 AAGGTCAAAGATTACAACATATTTCTTCTAATCTCGACACTCCCCCACAAGTTAACTGGATCCTA
* * *
11971784 ATATCAATTAGTTAAGGTCAAAGATTACAACATATTTCTT-TCAATCTCAACACTCCCCCACAAG
66 ATATCAATTACTTAAGGTCAAAGATTACAACATATTTCTTCT-AATCTCGACACTACCCCACAAG
11971848 TT
130 TT
11971850 GGTGTGTAGA
Statistics
Matches: 385, Mismatches: 48, Indels: 15
0.86 0.11 0.03
Matches are distributed among these distances:
153 1 0.00
154 70 0.18
155 171 0.44
156 143 0.37
ACGTcount: A:0.35, C:0.22, G:0.09, T:0.34
Consensus pattern (156 bp):
AAGGTCAAAGATTACAACATATTTCTTCTAATCTCGACACTCCCCCACAAGTTAACTGGATCCTA
ATATCAATTACTTAAGGTCAAAGATTACAACATATTTCTTCTAATCTCGACACTACCCCACAAGT
TAACTGGATTTTAATATCAATTACTT
Found at i:11971662 original size:233 final size:233
Alignment explanation
Indices: 11971255--11971843 Score: 885
Period size: 233 Copynumber: 2.5 Consensus size: 233
11971245 AAATACTTAA
* * * * * *
11971255 AAGGTCAAATATTATAATATATTTCTTCTAATCTCGACATTCCCCACAAGTTAATTGGATCCTAA
1 AAGGTCAAAGATTACAACATATTTCTTCTAATCTCGACACTCCCCACAAGTTAACTAGATCCTAA
* * * * *
11971320 TATAAATTACTTAAGGTCAAATATTACAACATATTTCTTTTAATCTCGATACTCTCTCATAAGCT
66 TATCAATTACTTAAGGTCAAAGATTACAACATATTTCTTTTAATCTCGACACTCCCCCATAAGCT
** *
11971385 AACTGGATTTTAATATCAATTAATTGAGGTCAAAGATTACAACATATTTCT-TCTAATCTCGACA
131 AACTGGACCTTAATATCAATTAATTAAGGTCAAAGATTACAACATATTTCTCT-TAATCTCGACA
* *
11971449 CTCCCCCACAAGTTAATTGGATCTTAATATCAATTACTT
195 CTACCCCACAAGTTAACTGGATCTTAATATCAATTACTT
* *
11971488 AAGGTCAAAGATTACAACAAATTTCTTCTAATCTCGACACTCCCCACAAGTTAACTAGATCCCAA
1 AAGGTCAAAGATTACAACATATTTCTTCTAATCTCGACACTCCCCACAAGTTAACTAGATCCTAA
*
11971553 TATCAATTACTTAAGGTCAAAGATTTCAACATATTTCTTTTAATCTCGACACTCCCCCATAAGCT
66 TATCAATTACTTAAGGTCAAAGATTACAACATATTTCTTTTAATCTCGACACTCCCCCATAAGCT
* * **
11971618 AACTGGACCTTAATATCAATTACTTAAGGTCAAAGATTACAACATATTTCTCTTAGTCTCGACTT
131 AACTGGACCTTAATATCAATTAATTAAGGTCAAAGATTACAACATATTTCTCTTAATCTCGACAC
*
11971683 TACCCCACAAGTTAACTGGATTTTAATATCAATTACTT
196 TACCCCACAAGTTAACTGGATCTTAATATCAATTACTT
* * *
11971721 AAGGTCAAAGATTACAACATATTTCTTCTAATATCGACACTTCCC-CATGTTAACTAGATCCTAA
1 AAGGTCAAAGATTACAACATATTTCTTCTAATCTCGACACTCCCCACAAGTTAACTAGATCCTAA
* * *
11971785 TATCAATTAGTTAAGGTCAAAGATTACAACATATTTCTTTCAATCTCAACACTCCCCCA
66 TATCAATTACTTAAGGTCAAAGATTACAACATATTTCTTTTAATCTCGACACTCCCCCA
11971844 CAAGTTGGTG
Statistics
Matches: 322, Mismatches: 33, Indels: 3
0.90 0.09 0.01
Matches are distributed among these distances:
232 72 0.22
233 249 0.77
234 1 0.00
ACGTcount: A:0.35, C:0.22, G:0.09, T:0.34
Consensus pattern (233 bp):
AAGGTCAAAGATTACAACATATTTCTTCTAATCTCGACACTCCCCACAAGTTAACTAGATCCTAA
TATCAATTACTTAAGGTCAAAGATTACAACATATTTCTTTTAATCTCGACACTCCCCCATAAGCT
AACTGGACCTTAATATCAATTAATTAAGGTCAAAGATTACAACATATTTCTCTTAATCTCGACAC
TACCCCACAAGTTAACTGGATCTTAATATCAATTACTT
Found at i:11972650 original size:40 final size:39
Alignment explanation
Indices: 11972566--11972653 Score: 99
Period size: 40 Copynumber: 2.3 Consensus size: 39
11972556 CCTTTAGTGG
*
11972566 CTTTAGCAGCGCTTTTAAAAACGCCGCTAAAGATCAAGT
1 CTTTAGCGGCGCTTTTAAAAACGCCGCTAAAGATCAAGT
* * * *
11972605 -ATTAGCGGCGCTTTTCAAAAAGCGCCGCTAATGTTCGA-T
1 CTTTAGCGGCGCTTTT-AAAAA-CGCCGCTAAAGATCAAGT
11972644 CTTTAGCGGC
1 CTTTAGCGGC
11972654 ATTTTTTGAA
Statistics
Matches: 40, Mismatches: 6, Indels: 5
0.78 0.12 0.10
Matches are distributed among these distances:
38 13 0.32
39 6 0.15
40 21 0.52
ACGTcount: A:0.27, C:0.24, G:0.22, T:0.27
Consensus pattern (39 bp):
CTTTAGCGGCGCTTTTAAAAACGCCGCTAAAGATCAAGT
Found at i:11972869 original size:21 final size:21
Alignment explanation
Indices: 11972823--11972874 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 21
11972813 TTAATTATCA
* *
11972823 TTATAGTTTAGGGTTTACAGT
1 TTATGGTTAAGGGTTTACAGT
*
11972844 ATATGGTTAAGGGTTTA-ATGT
1 TTATGGTTAAGGGTTTACA-GT
11972865 TTATGAGTTA
1 TTATG-GTTA
11972875 TTATTTTAAG
Statistics
Matches: 25, Mismatches: 4, Indels: 3
0.78 0.12 0.09
Matches are distributed among these distances:
20 1 0.04
21 20 0.80
22 4 0.16
ACGTcount: A:0.27, C:0.02, G:0.25, T:0.46
Consensus pattern (21 bp):
TTATGGTTAAGGGTTTACAGT
Found at i:11972940 original size:25 final size:25
Alignment explanation
Indices: 11972899--11972946 Score: 71
Period size: 25 Copynumber: 1.9 Consensus size: 25
11972889 ATAGATTATG
11972899 GGTTTAGGGATTATGGTTTAAGGGT
1 GGTTTAGGGATTATGGTTTAAGGGT
*
11972924 GGTTTAAGGG-TTGTGGTTTAAGG
1 GGTTT-AGGGATTATGGTTTAAGG
11972947 TTTAAGTGTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 17 0.81
26 4 0.19
ACGTcount: A:0.19, C:0.00, G:0.42, T:0.40
Consensus pattern (25 bp):
GGTTTAGGGATTATGGTTTAAGGGT
Found at i:11972966 original size:22 final size:21
Alignment explanation
Indices: 11972924--11972978 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 21
11972914 GTTTAAGGGT
*
11972924 GGTTTAAGGGTTGTGGTTTAA
1 GGTTTAAGGGTTGTGGGTTAA
*
11972945 GGTTTAAGTGTTAGTGGGTTAA
1 GGTTTAAGGGTT-GTGGGTTAA
* *
11972967 GGGTTAGGGGTT
1 GGTTTAAGGGTT
11972979 TAGGTTCATG
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
21 11 0.39
22 17 0.61
ACGTcount: A:0.18, C:0.00, G:0.42, T:0.40
Consensus pattern (21 bp):
GGTTTAAGGGTTGTGGGTTAA
Found at i:11973020 original size:22 final size:21
Alignment explanation
Indices: 11972990--11973035 Score: 56
Period size: 22 Copynumber: 2.1 Consensus size: 21
11972980 AGGTTCATGT
*
11972990 TTTAGGATTTACAATTTAGGG
1 TTTAGGATTAACAATTTAGGG
* *
11973011 TTTAGAGATTAAGAGTTTAGGG
1 TTTAG-GATTAACAATTTAGGG
11973033 TTT
1 TTT
11973036 TTTAATTTAT
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
21 5 0.24
22 16 0.76
ACGTcount: A:0.28, C:0.02, G:0.26, T:0.43
Consensus pattern (21 bp):
TTTAGGATTAACAATTTAGGG
Found at i:11973201 original size:15 final size:15
Alignment explanation
Indices: 11973183--11973230 Score: 62
Period size: 15 Copynumber: 3.3 Consensus size: 15
11973173 ATTATTTTAA
11973183 GGTTTATGGATTATG
1 GGTTTATGGATTATG
*
11973198 GGTTTAGGGATTAT-
1 GGTTTATGGATTATG
* *
11973212 GGTTTATGGTTTAAG
1 GGTTTATGGATTATG
11973227 GGTT
1 GGTT
11973231 GGGGTTTAAG
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
14 11 0.39
15 17 0.61
ACGTcount: A:0.19, C:0.00, G:0.35, T:0.46
Consensus pattern (15 bp):
GGTTTATGGATTATG
Found at i:11973203 original size:22 final size:21
Alignment explanation
Indices: 11973178--11973227 Score: 64
Period size: 22 Copynumber: 2.3 Consensus size: 21
11973168 GAGTTATTAT
*
11973178 TTTAAGGTTTATGGATTATGGG
1 TTTAAGGATTATGGATTAT-GG
* *
11973200 TTTAGGGATTATGGTTTATGG
1 TTTAAGGATTATGGATTATGG
11973221 TTTAAGG
1 TTTAAGG
11973228 GTTGGGGTTT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
21 8 0.33
22 16 0.67
ACGTcount: A:0.22, C:0.00, G:0.32, T:0.46
Consensus pattern (21 bp):
TTTAAGGATTATGGATTATGG
Found at i:11973236 original size:14 final size:15
Alignment explanation
Indices: 11973219--11973259 Score: 59
Period size: 14 Copynumber: 2.9 Consensus size: 15
11973209 TATGGTTTAT
11973219 GGTTTAAGGGTT-GG
1 GGTTTAAGGGTTAGG
*
11973233 GGTTTAAGGCTTAGG
1 GGTTTAAGGGTTAGG
11973248 GG-TTAAGGGTTA
1 GGTTTAAGGGTTA
11973260 AGTGTTAGGT
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
14 20 0.83
15 4 0.17
ACGTcount: A:0.20, C:0.02, G:0.44, T:0.34
Consensus pattern (15 bp):
GGTTTAAGGGTTAGG
Found at i:11973250 original size:21 final size:21
Alignment explanation
Indices: 11973212--11973251 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
11973202 TAGGGATTAT
* *
11973212 GGTTTATGGTTTAAGGGTTGG
1 GGTTTAAGGCTTAAGGGTTGG
*
11973233 GGTTTAAGGCTTAGGGGTT
1 GGTTTAAGGCTTAAGGGTT
11973252 AAGGGTTAAG
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.15, C:0.03, G:0.42, T:0.40
Consensus pattern (21 bp):
GGTTTAAGGCTTAAGGGTTGG
Found at i:11978108 original size:15 final size:16
Alignment explanation
Indices: 11978088--11978120 Score: 50
Period size: 17 Copynumber: 2.1 Consensus size: 16
11978078 TATATATATT
11978088 TTATTTT-ATTTTTAA
1 TTATTTTAATTTTTAA
11978103 TTATTTTAAATTTTTAA
1 TTATTTT-AATTTTTAA
11978120 T
1 T
11978121 ATAACCATTT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.44
17 9 0.56
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (16 bp):
TTATTTTAATTTTTAA
Found at i:11978193 original size:21 final size:21
Alignment explanation
Indices: 11978167--11978225 Score: 68
Period size: 21 Copynumber: 2.8 Consensus size: 21
11978157 GTTTTAAGAA
11978167 TTGTTTTAATATTATTTTTAT
1 TTGTTTTAATATTATTTTTAT
*
11978188 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATA-TTATTTTTAT
*
11978210 GT-TTTTAA-ATATATTT
1 TTGTTTTAATAT-TATTT
11978226 GATTTATTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
19 1 0.03
20 5 0.15
21 17 0.52
22 10 0.30
ACGTcount: A:0.24, C:0.00, G:0.07, T:0.69
Consensus pattern (21 bp):
TTGTTTTAATATTATTTTTAT
Found at i:11978200 original size:12 final size:12
Alignment explanation
Indices: 11978155--11978206 Score: 56
Period size: 12 Copynumber: 4.6 Consensus size: 12
11978145 AATTTGTGTA
* *
11978155 TTGTTTTAAGAA
1 TTGTTTTAATAT
11978167 TTGTTTTAATA-
1 TTGTTTTAATAT
*
11978178 TTATTTT--TAT
1 TTGTTTTAATAT
11978188 TTGTTTTAATAT
1 TTGTTTTAATAT
11978200 TTGTTTT
1 TTGTTTT
11978207 TATGTTTTTA
Statistics
Matches: 34, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
9 2 0.06
10 6 0.18
11 6 0.18
12 20 0.59
ACGTcount: A:0.23, C:0.00, G:0.10, T:0.67
Consensus pattern (12 bp):
TTGTTTTAATAT
Found at i:11978240 original size:26 final size:24
Alignment explanation
Indices: 11978196--11978244 Score: 71
Period size: 26 Copynumber: 2.0 Consensus size: 24
11978186 ATTTGTTTTA
*
11978196 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
11978220 ATATTTGATTTATTATATTTTTAAA
1 ATATTTG-TTT-TTATATTTTTAAA
11978245 CTTTTTTTAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.32
25 3 0.14
26 12 0.55
ACGTcount: A:0.31, C:0.00, G:0.06, T:0.63
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:11988897 original size:42 final size:42
Alignment explanation
Indices: 11988819--11988969 Score: 153
Period size: 42 Copynumber: 3.6 Consensus size: 42
11988809 ACATGGCTAG
* * * * *
11988819 GGACATGGGCATGTGCCCAGGTCGTGTGAGTC-ACACAGGCAA
1 GGACATGGGCATGTGTCTAGGCCATGTGAG-CAACACAGGTAA
*
11988861 GGACATGGGCTTGTGTCTAGGCCATGTG-GCTAACACAGGTAA
1 GGACATGGGCATGTGTCTAGGCCATGTGAGC-AACACAGGTAA
* * * * * *
11988903 GGATATGGGCGTGTGTCTAGGTCGTGTGAGCCATACAGGTAA
1 GGACATGGGCATGTGTCTAGGCCATGTGAGCAACACAGGTAA
*
11988945 GGACATGGGCATGTGTCTATGCCAT
1 GGACATGGGCATGTGTCTAGGCCAT
11988970 ATGACATATA
Statistics
Matches: 89, Mismatches: 17, Indels: 6
0.79 0.15 0.05
Matches are distributed among these distances:
40 1 0.01
41 1 0.01
42 85 0.96
43 2 0.02
ACGTcount: A:0.23, C:0.19, G:0.35, T:0.23
Consensus pattern (42 bp):
GGACATGGGCATGTGTCTAGGCCATGTGAGCAACACAGGTAA
Found at i:11992579 original size:2 final size:2
Alignment explanation
Indices: 11992574--11992603 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
11992564 ATAACTTAAA
11992574 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
11992604 TAGATTAACA
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:11994297 original size:27 final size:22
Alignment explanation
Indices: 11994243--11994287 Score: 81
Period size: 22 Copynumber: 2.0 Consensus size: 22
11994233 GAATGAGATT
*
11994243 ATTAAAGGAAAGCATTCTGATA
1 ATTAAAGGAAAGCATCCTGATA
11994265 ATTAAAGGAAAGCATCCTGATA
1 ATTAAAGGAAAGCATCCTGATA
11994287 A
1 A
11994288 ACTTAGTAAA
Statistics
Matches: 22, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.47, C:0.11, G:0.18, T:0.24
Consensus pattern (22 bp):
ATTAAAGGAAAGCATCCTGATA
Found at i:12001049 original size:37 final size:37
Alignment explanation
Indices: 12000999--12001070 Score: 144
Period size: 37 Copynumber: 1.9 Consensus size: 37
12000989 AATAAAATGG
12000999 TCACAGGTTTTATTTATGTTCCGCACTATAAGTTTGA
1 TCACAGGTTTTATTTATGTTCCGCACTATAAGTTTGA
12001036 TCACAGGTTTTATTTATGTTCCGCACTATAAGTTT
1 TCACAGGTTTTATTTATGTTCCGCACTATAAGTTT
12001071 CCACAGGACC
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.24, C:0.17, G:0.15, T:0.44
Consensus pattern (37 bp):
TCACAGGTTTTATTTATGTTCCGCACTATAAGTTTGA
Found at i:12001092 original size:37 final size:36
Alignment explanation
Indices: 12001009--12001084 Score: 100
Period size: 37 Copynumber: 2.1 Consensus size: 36
12000999 TCACAGGTTT
* ***
12001009 TATTTATGTTCCGCACTATAAGTTTGATCACAGGTTT
1 TATTTATGTTCCGCACTATAAGTTT-ACCACAGGACC
12001046 TATTTATGTTCCGCACTATAAGTTT-CCACAGGACC
1 TATTTATGTTCCGCACTATAAGTTTACCACAGGACC
12001081 TATT
1 TATT
12001085 ATAATGTTGG
Statistics
Matches: 35, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
35 10 0.29
37 25 0.71
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.41
Consensus pattern (36 bp):
TATTTATGTTCCGCACTATAAGTTTACCACAGGACC
Found at i:12002194 original size:23 final size:25
Alignment explanation
Indices: 12002168--12002215 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
12002158 GTCTTGATTC
12002168 TTAAAAA-ATTAAAA-TTAATTTTT
1 TTAAAAATATTAAAAGTTAATTTTT
* *
12002191 TTAAAAATTTTAAAAGTTTATTTTT
1 TTAAAAATATTAAAAGTTAATTTTT
12002216 CAATTAAAAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 7 0.33
24 6 0.29
25 8 0.38
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (25 bp):
TTAAAAATATTAAAAGTTAATTTTT
Found at i:12002341 original size:20 final size:20
Alignment explanation
Indices: 12002318--12002368 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
12002308 AAATTTATTT
* *
12002318 AATAAAATAATGATTTTATA
1 AATAAAATAATAATCTTATA
12002338 AATAAAATAATAATCTTATA
1 AATAAAATAATAATCTTATA
*
12002358 AACAAAATAAT
1 AATAAAATAAT
12002369 TCAAGAGGGA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.61, C:0.04, G:0.02, T:0.33
Consensus pattern (20 bp):
AATAAAATAATAATCTTATA
Found at i:12008803 original size:20 final size:19
Alignment explanation
Indices: 12008770--12008808 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
12008760 AAAATTACAA
*
12008770 TAAAAAAAGGAGAAAATAAT
1 TAAAAAAAGAAG-AAATAAT
*
12008790 TAAAAGAAGAAGAAATAAT
1 TAAAAAAAGAAGAAATAAT
12008809 AGAATAGATA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.69, C:0.00, G:0.15, T:0.15
Consensus pattern (19 bp):
TAAAAAAAGAAGAAATAAT
Found at i:12019111 original size:21 final size:22
Alignment explanation
Indices: 12019062--12019111 Score: 52
Period size: 21 Copynumber: 2.4 Consensus size: 22
12019052 AAACTACATC
12019062 AGTCC-AAACAACAAAACAAAA
1 AGTCCAAAACAACAAAACAAAA
* * *
12019083 AAT-AAAAACAACACAAC-AAA
1 AGTCCAAAACAACAAAACAAAA
12019103 AGTCCAAAA
1 AGTCCAAAA
12019112 ACCAGCAACA
Statistics
Matches: 22, Mismatches: 5, Indels: 4
0.71 0.16 0.13
Matches are distributed among these distances:
20 5 0.23
21 17 0.77
ACGTcount: A:0.68, C:0.22, G:0.04, T:0.06
Consensus pattern (22 bp):
AGTCCAAAACAACAAAACAAAA
Found at i:12027173 original size:22 final size:22
Alignment explanation
Indices: 12027146--12027189 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
12027136 GCGACACCAA
*
12027146 AAATACGTTTTGGAACCTTAAC
1 AAATACATTTTGGAACCTTAAC
12027168 AAATACATTTTGGAACCTTAAC
1 AAATACATTTTGGAACCTTAAC
12027190 TTAAGGGTTT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.39, C:0.18, G:0.11, T:0.32
Consensus pattern (22 bp):
AAATACATTTTGGAACCTTAAC
Found at i:12033622 original size:13 final size:15
Alignment explanation
Indices: 12033604--12033635 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
12033594 TATTGAGATG
12033604 TATAC-TAGCAT-GT
1 TATACTTAGCATGGT
12033617 TATACTTAGCATGGT
1 TATACTTAGCATGGT
12033632 TATA
1 TATA
12033636 AATATTGATC
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
13 5 0.29
14 6 0.35
15 6 0.35
ACGTcount: A:0.31, C:0.12, G:0.16, T:0.41
Consensus pattern (15 bp):
TATACTTAGCATGGT
Found at i:12035954 original size:34 final size:35
Alignment explanation
Indices: 12035881--12035955 Score: 98
Period size: 35 Copynumber: 2.2 Consensus size: 35
12035871 GAGCCCAATT
* *
12035881 CTAGTTGGATAAACCAATGATATCTGTGCCCAGCG
1 CTAGTCGGATAAACCAATGATATCTGTGCCCAGCA
* * *
12035916 CTAGTCGGATAAACCGATGA-ATGTGTGCCTAGCA
1 CTAGTCGGATAAACCAATGATATCTGTGCCCAGCA
12035950 CTAGTC
1 CTAGTC
12035956 AAATAAACTG
Statistics
Matches: 35, Mismatches: 5, Indels: 1
0.85 0.12 0.02
Matches are distributed among these distances:
34 17 0.49
35 18 0.51
ACGTcount: A:0.28, C:0.23, G:0.24, T:0.25
Consensus pattern (35 bp):
CTAGTCGGATAAACCAATGATATCTGTGCCCAGCA
Found at i:12035962 original size:34 final size:35
Alignment explanation
Indices: 12035889--12035963 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 35
12035879 TTCTAGTTGG
* **
12035889 ATAAACCAATGATATCTGTGCCCAGCGCTAGTCGG
1 ATAAACCAATGATATCTGTGCCCAGCACTAGTCAA
* * *
12035924 ATAAACCGATGA-ATGTGTGCCTAGCACTAGTCAA
1 ATAAACCAATGATATCTGTGCCCAGCACTAGTCAA
12035958 ATAAAC
1 ATAAAC
12035964 TGACGAAAGT
Statistics
Matches: 34, Mismatches: 6, Indels: 1
0.83 0.15 0.02
Matches are distributed among these distances:
34 23 0.68
35 11 0.32
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.23
Consensus pattern (35 bp):
ATAAACCAATGATATCTGTGCCCAGCACTAGTCAA
Found at i:12036036 original size:143 final size:143
Alignment explanation
Indices: 12035770--12036065 Score: 405
Period size: 143 Copynumber: 2.1 Consensus size: 143
12035760 CTTGCGCCTG
* * * *
12035770 GCGCTAGTCGGATAAATCGACAAATGTGTGCCCAGCACTAGTCAAATAAACTGATGAAGGTTGCG
1 GCGCTAGTCGGATAAACCGACAAATGTGTGCCCAGCACTAGTCAAATAAACTGACGAAAGTTGCA
** * * *
12035835 CCCAGAGCTAGCTGGATAAACCGACAAATAATTAGTGAGCCCAATTCTAGTTGGATAAACCAATG
66 CCCAGAGCTAGCTAAATAAACCGACAAATAATTAGTGAGCCCAACTCTAGCTGGATAAACCAACG
**
12035900 ATATCTGTGCCCA
131 ATATCTGCACCCA
** *
12035913 GCGCTAGTCGGATAAACCGATGAATGTGTGCCTAGCACTAGTCAAATAAACTGACGAAAGTTGCA
1 GCGCTAGTCGGATAAACCGACAAATGTGTGCCCAGCACTAGTCAAATAAACTGACGAAAGTTGCA
* * *
12035978 CCCAGCGCTAGAC-AAATAAACCGACAAATAATTAGTGAGCCCAGCTCTAGCTGTATAAACCAAC
66 CCCAGAGCTAG-CTAAATAAACCGACAAATAATTAGTGAGCCCAACTCTAGCTGGATAAACCAAC
*
12036042 GATATTTGCACCCA
130 GATATCTGCACCCA
*
12036056 ACGCTAGTCG
1 GCGCTAGTCG
12036066 AATGAATCGA
Statistics
Matches: 133, Mismatches: 19, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
143 132 0.99
144 1 0.01
ACGTcount: A:0.34, C:0.23, G:0.21, T:0.21
Consensus pattern (143 bp):
GCGCTAGTCGGATAAACCGACAAATGTGTGCCCAGCACTAGTCAAATAAACTGACGAAAGTTGCA
CCCAGAGCTAGCTAAATAAACCGACAAATAATTAGTGAGCCCAACTCTAGCTGGATAAACCAACG
ATATCTGCACCCA
Found at i:12037531 original size:13 final size:13
Alignment explanation
Indices: 12037515--12037539 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
12037505 AAAATAACTC
12037515 TATAAATATTTAA
1 TATAAATATTTAA
12037528 TATAAATATTTA
1 TATAAATATTTA
12037540 CGAGCCTGAT
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:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (13 bp):
TATAAATATTTAA
Found at i:12039578 original size:17 final size:17
Alignment explanation
Indices: 12039556--12039588 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
12039546 GCCCATACAA
12039556 AAACCAAAAAACAAAAT
1 AAACCAAAAAACAAAAT
*
12039573 AAACCAAAATACAAAA
1 AAACCAAAAAACAAAA
12039589 ACCAAAATTA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.76, C:0.18, G:0.00, T:0.06
Consensus pattern (17 bp):
AAACCAAAAAACAAAAT
Found at i:12039596 original size:14 final size:14
Alignment explanation
Indices: 12039550--12039596 Score: 58
Period size: 14 Copynumber: 3.1 Consensus size: 14
12039540 GCCCGGGCCC
12039550 ATACAAAAACCAAA
1 ATACAAAAACCAAA
*
12039564 AAACAAAATAAACCAAA
1 ATAC--AA-AAACCAAA
12039581 ATACAAAAACCAAA
1 ATACAAAAACCAAA
12039595 AT
1 AT
12039597 TAAAGTCCAA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
14 13 0.46
15 2 0.07
16 2 0.07
17 11 0.39
ACGTcount: A:0.72, C:0.19, G:0.00, T:0.09
Consensus pattern (14 bp):
ATACAAAAACCAAA
Found at i:12044081 original size:14 final size:14
Alignment explanation
Indices: 12044062--12044091 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
12044052 TTATATCGAG
12044062 ACCAATCCAAATCA
1 ACCAATCCAAATCA
*
12044076 ACCAATCCAATTCA
1 ACCAATCCAAATCA
12044090 AC
1 AC
12044092 ATATTTTCAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.47, C:0.37, G:0.00, T:0.17
Consensus pattern (14 bp):
ACCAATCCAAATCA
Found at i:12044109 original size:22 final size:23
Alignment explanation
Indices: 12044084--12044129 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
12044074 CAACCAATCC
* *
12044084 AATTCA-ACATATTTTCAAGATA
1 AATTCATACATATTTACAAAATA
*
12044106 AATTCATGCATATTTACAAAATA
1 AATTCATACATATTTACAAAATA
12044129 A
1 A
12044130 CGTCATCACA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.48, C:0.13, G:0.04, T:0.35
Consensus pattern (23 bp):
AATTCATACATATTTACAAAATA
Found at i:12044135 original size:23 final size:23
Alignment explanation
Indices: 12044091--12044135 Score: 54
Period size: 23 Copynumber: 2.0 Consensus size: 23
12044081 TCCAATTCAA
* * *
12044091 CATATTTTCAAGATAAATTCATG
1 CATATTTACAAAATAAAGTCATG
*
12044114 CATATTTACAAAATAACGTCAT
1 CATATTTACAAAATAAAGTCAT
12044136 CACATACCCA
Statistics
Matches: 18, Mismatches: 4, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.42, C:0.16, G:0.07, T:0.36
Consensus pattern (23 bp):
CATATTTACAAAATAAAGTCATG
Found at i:12049234 original size:14 final size:15
Alignment explanation
Indices: 12049216--12049257 Score: 61
Period size: 14 Copynumber: 2.9 Consensus size: 15
12049206 CAAAATAAAA
12049216 AAAAAAGAAAGAAAT
1 AAAAAAGAAAGAAAT
*
12049231 -AAAAAGAGA-AAAT
1 AAAAAAGAAAGAAAT
12049244 AAAAAAGAAAGAAA
1 AAAAAAGAAAGAAA
12049258 GAAAGAATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 4 0.17
14 16 0.70
15 3 0.13
ACGTcount: A:0.81, C:0.00, G:0.14, T:0.05
Consensus pattern (15 bp):
AAAAAAGAAAGAAAT
Found at i:12049234 original size:32 final size:32
Alignment explanation
Indices: 12049198--12049290 Score: 100
Period size: 32 Copynumber: 2.9 Consensus size: 32
12049188 CTTGAGAACT
12049198 TAAAAAATCAAAATAAAAAAAAAAGAAAGAAA
1 TAAAAAATCAAAATAAAAAAAAAAGAAAGAAA
* *
12049230 TAAAAAGA-GAAAATAAAAAAGAAAGAAAGAAA
1 TAAAAA-ATCAAAATAAAAAAAAAAGAAAGAAA
* **
12049262 GAATCAATCAAAA-AAAAAGAAGAAAGAAA
1 TAAAAAATCAAAATAAAAA-AA-AAAGAAA
12049291 AGGAGAGGCC
Statistics
Matches: 50, Mismatches: 7, Indels: 7
0.78 0.11 0.11
Matches are distributed among these distances:
31 6 0.12
32 36 0.72
33 8 0.16
ACGTcount: A:0.77, C:0.03, G:0.12, T:0.08
Consensus pattern (32 bp):
TAAAAAATCAAAATAAAAAAAAAAGAAAGAAA
Found at i:12051866 original size:46 final size:44
Alignment explanation
Indices: 12051762--12051869 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
12051752 TGTCTTTGAC
** * * *
12051762 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
12051806 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
12051852 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
12051870 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:12059254 original size:46 final size:44
Alignment explanation
Indices: 12059150--12059257 Score: 144
Period size: 44 Copynumber: 2.4 Consensus size: 44
12059140 TGTCTTTGAC
** * * *
12059150 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
*
12059194 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATTTCTAAT
1 ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATA--TATAAT
12059240 ATGGACTTACATGGCTCA
1 ATGGACTTACATGGCTCA
12059258 TTTCGTTCTG
Statistics
Matches: 56, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
44 33 0.59
46 23 0.41
ACGTcount: A:0.30, C:0.23, G:0.14, T:0.33
Consensus pattern (44 bp):
ATGGACTTACATGGCTCAATCCTGTCTCCAAAGCCATATATAAT
Found at i:12060979 original size:133 final size:133
Alignment explanation
Indices: 12060842--12061104 Score: 361
Period size: 133 Copynumber: 2.0 Consensus size: 133
12060832 AAGATGGCGA
* * *
12060842 ATCTTTTCTCCATGTATCGGCAATGGAGTAGATTTTAGCCACCAG-CCTTATCTCTCTGAA-GTA
1 ATCTTATCTCCATGTACCGGCAATGGAGCAGATTTTAGCCA-CAGACCTTATCTCTCT-AAGGTA
* * ** * * *
12060905 GTAAGGGAGCAGGTTGGCGATTG-TAGTCTTATCTTCTTGAGGTAGCAAGGAAGCAGACTGAAGA
64 GCAAGAGAGCAGGTTGAAGA-TGATAGTCTTATCCTCCTGAGGCAGCAAGGAAGCAGACTGAAGA
12060969 TTGAAT
128 TTGAAT
* **
12060975 ATCTTATCTCCATGTACCGGTAATGGAGCAGATTTTAGCCATTGACCTTATCTCTCTAAGGTAGC
1 ATCTTATCTCCATGTACCGGCAATGGAGCAGATTTTAGCCACAGACCTTATCTCTCTAAGGTAGC
12061040 AAGAGAGCAGGTTGAAGATGATAGTCTTATCCTCCTGAGGCAGCAAGGAAGCAGACTGAAGATTG
66 AAGAGAGCAGGTTGAAGATGATAGTCTTATCCTCCTGAGGCAGCAAGGAAGCAGACTGAAGATTG
12061105 CAGGTCTTAT
Statistics
Matches: 114, Mismatches: 13, Indels: 6
0.86 0.10 0.05
Matches are distributed among these distances:
132 5 0.04
133 109 0.96
ACGTcount: A:0.28, C:0.18, G:0.25, T:0.29
Consensus pattern (133 bp):
ATCTTATCTCCATGTACCGGCAATGGAGCAGATTTTAGCCACAGACCTTATCTCTCTAAGGTAGC
AAGAGAGCAGGTTGAAGATGATAGTCTTATCCTCCTGAGGCAGCAAGGAAGCAGACTGAAGATTG
AAT
Found at i:12061323 original size:137 final size:137
Alignment explanation
Indices: 12061149--12061554 Score: 421
Period size: 137 Copynumber: 3.0 Consensus size: 137
12061139 CCAAAGACAA
* ** *
12061149 CAAATCTTATCTCCATGTACCGGTAATGGAGTAGATTTAAGTCCCCAGCCTTATCTCTCTGAA-G
1 CAAATCTTATCTCCATGTATCGACAATGGAGCAGATTTAAG-CCCCAGCCTTATCTCTCTGAAGG
* * * * * * * *
12061213 TTGC-AGTGGGGTAGGCTCG-ATATACAAGTCTTATCTCCCTGAGGTTG-TAGTGGAGCAAACTG
65 TAGCAAG-AGAGCAGG-TCGAAGATACAAGTCTTATCTCCCTGAGGTAGCAAG-GAAGCAAACTG
12061275 AAGATTGGAGG
127 AAGATTGGAGG
*
12061286 CAAATCTTATCTTCATGTATCGACAATGGAGCAGATTTAAGCCCCAAGCCTTATCTCTCT-AAGG
1 CAAATCTTATCTCCATGTATCGACAATGGAGCAGATTTAAGCCCC-AGCCTTATCTCTCTGAAGG
* ** * * *
12061350 TAGCAAGAGAGCAGGTTGAAGATTGAAGTCTTATCTTCCTGAGGTAGCAAGGAAGCAGACTGAAT
65 TAGCAAGAGAGCAGGTCGAAGATACAAGTCTTATCTCCCTGAGGTAGCAAGGAAGCAAACTGAAG
12061415 ATTGGAGG
130 ATTGGAGG
* **
12061423 CAAATCTTATCTCCATGTATCGACAATAGAGCAGATTTAAGCCTGAAGCCTTATCTCTCTG-AGG
1 CAAATCTTATCTCCATGTATCGACAATGGAGCAGATTTAAGCC-CCAGCCTTATCTCTCTGAAGG
** ** ** ** * *
12061487 TAGCAAGAGAGCAGGTTAAAGAT-TGAGTCTTATCTTTCTGAGGTAGCAAAAAAGCAGACTAAAG
65 TAGCAAGAGAGCAGGTCGAAGATACAAGTCTTATCTCCCTGAGGTAGCAAGGAAGCAAACTGAAG
12061551 ATTG
130 ATTG
12061555 AAGATCTTAT
Statistics
Matches: 231, Mismatches: 31, Indels: 15
0.83 0.11 0.05
Matches are distributed among these distances:
136 46 0.20
137 181 0.78
138 4 0.02
ACGTcount: A:0.30, C:0.18, G:0.24, T:0.28
Consensus pattern (137 bp):
CAAATCTTATCTCCATGTATCGACAATGGAGCAGATTTAAGCCCCAGCCTTATCTCTCTGAAGGT
AGCAAGAGAGCAGGTCGAAGATACAAGTCTTATCTCCCTGAGGTAGCAAGGAAGCAAACTGAAGA
TTGGAGG
Found at i:12061383 original size:44 final size:44
Alignment explanation
Indices: 12061335--12061567 Score: 166
Period size: 44 Copynumber: 5.2 Consensus size: 44
12061325 AGCCCCAAGC
* * *
12061335 CTTATCTCTCTAAGGTAGCAAGAGAGCAGGTTGAAGATTGAAGT
1 CTTATCTCTCTGAGGTAGCAAGAGAGCAGATTAAAGATTGAAGT
* * * * *
12061379 CTTATCT-TCCTGAGGTAGCAAG-GAAGCAGACTGAATATTGGAGG
1 CTTATCTCT-CTGAGGTAGCAAGAG-AGCAGATTAAAGATTGAAGT
** * * * * * ** *
12061423 CAAATCTTATCTCCATGTATCGACAATAGAGCAGATTTAAGCCTGAAGC
1 CTTATC-TCTCT-GAGGTA--G-CAAGAGAGCAGATTAAAGATTGAAGT
*
12061472 CTTATCTCTCTGAGGTAGCAAGAGAGCAGGTTAAAGATTG-AGT
1 CTTATCTCTCTGAGGTAGCAAGAGAGCAGATTAAAGATTGAAGT
* * * *
12061515 CTTATCTTTCTGAGGTAGCAAAAAAGCAGACTAAAGATTGAAGAT
1 CTTATCTCTCTGAGGTAGCAAGAGAGCAGATTAAAGATTGAAG-T
12061560 CTTATCTC
1 CTTATCTC
12061568 CCCTAAGCAG
Statistics
Matches: 143, Mismatches: 35, Indels: 21
0.72 0.18 0.11
Matches are distributed among these distances:
43 39 0.27
44 57 0.40
45 12 0.08
46 5 0.03
47 4 0.03
48 5 0.03
49 20 0.14
50 1 0.01
ACGTcount: A:0.33, C:0.17, G:0.23, T:0.27
Consensus pattern (44 bp):
CTTATCTCTCTGAGGTAGCAAGAGAGCAGATTAAAGATTGAAGT
Found at i:12061636 original size:177 final size:176
Alignment explanation
Indices: 12061422--12061817 Score: 458
Period size: 177 Copynumber: 2.2 Consensus size: 176
12061412 AATATTGGAG
* * ** *
12061422 GCAAATCTTATCTCCATGTATCGACAATAGAGCAGATTTAAGCCTGAAGCCTTATCTCTCTGAGG
1 GCAAATCTTATCTCCATGTAT-GGCAATGGAGCAGATTTAAGCCACAAGCCTTATCTCTCTGAAG
* *
12061487 TAGCAAGAGAGCAGGTTAAAGA-TTGAGTCTTATCTTTCTGAGGTAGCAAAAAAGCAGACTAAAG
65 TAGCAAGAGAGCAGGTTAAAGATTTGAGTCTTATCTTCCTGAGGTACCAAAAAAGCAGACTAAAG
* * * *
12061551 ATTGAAGATCTTATCTCCCCT-AAGCAGTAGTGGAGCAGATCGA-AGATG
130 ACTAAAGATC-TAT-TCCCCTAAAGCAGTAGCGGAGCAGATCGAGA-ATA
* *
12061599 GCGAATCTTATCTCCATGTACTGGCAATGGAGCAGATTGT-AGCCACTAGCCTTATCTCTCTGAA
1 GCAAATCTTATCTCCATGTA-TGGCAATGGAGCAGATT-TAAGCCACAAGCCTTATCTCTCTGAA
*** * * ** * *
12061663 GTAGCAAGAGAGCAGGTTGGCGATTTTAGTTTTATCTTCCTGAGGTACCAAGGAAGTAGACTGAA
64 GTAGCAAGAGAGCAGGTTAAAGATTTGAGTCTTATCTTCCTGAGGTACCAAAAAAGCAGACTAAA
* * *
12061728 GACTAAAGATCTATTTCCCTAAAGCAGTTGCGGAGCAGATTGAGAATA
129 GACTAAAGATCTATTCCCCTAAAGCAGTAGCGGAGCAGATCGAGAATA
* *
12061776 GCAAATCTTATCTCCATGTATTGGCAACGGAACAGATTTAAG
1 GCAAATCTTATCTCCATGTA-TGGCAATGGAGCAGATTTAAG
12061818 TCACTAGTCT
Statistics
Matches: 184, Mismatches: 29, Indels: 12
0.82 0.13 0.05
Matches are distributed among these distances:
176 6 0.03
177 133 0.72
178 45 0.24
ACGTcount: A:0.32, C:0.18, G:0.23, T:0.27
Consensus pattern (176 bp):
GCAAATCTTATCTCCATGTATGGCAATGGAGCAGATTTAAGCCACAAGCCTTATCTCTCTGAAGT
AGCAAGAGAGCAGGTTAAAGATTTGAGTCTTATCTTCCTGAGGTACCAAAAAAGCAGACTAAAGA
CTAAAGATCTATTCCCCTAAAGCAGTAGCGGAGCAGATCGAGAATA
Found at i:12062415 original size:22 final size:22
Alignment explanation
Indices: 12062375--12062417 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
12062365 AGGTAATTCA
* **
12062375 AGTTTTCAGTTTTTTTTTTTTG
1 AGTTTTCAGATTTCGTTTTTTG
12062397 AGTTTTCAGATTTCGTTTTTT
1 AGTTTTCAGATTTCGTTTTTT
12062418 TAATATTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.12, C:0.07, G:0.14, T:0.67
Consensus pattern (22 bp):
AGTTTTCAGATTTCGTTTTTTG
Found at i:12064364 original size:26 final size:24
Alignment explanation
Indices: 12064322--12064373 Score: 61
Period size: 26 Copynumber: 2.1 Consensus size: 24
12064312 AGTGTACGAG
12064322 TTTTTGAAAGTCAAAAGTCGATCGTA
1 TTTTTGAAAGTCAAAAG--GATCGTA
*
12064348 TTTTTGAAGGT-ATAAAGGATCGTA
1 TTTTTGAAAGTCA-AAAGGATCGTA
12064372 TT
1 TT
12064374 CAATCGTGCT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
24 9 0.38
25 1 0.04
26 14 0.58
ACGTcount: A:0.33, C:0.08, G:0.21, T:0.38
Consensus pattern (24 bp):
TTTTTGAAAGTCAAAAGGATCGTA
Found at i:12066742 original size:24 final size:26
Alignment explanation
Indices: 12066715--12066765 Score: 70
Period size: 24 Copynumber: 2.0 Consensus size: 26
12066705 TATTTTAAAC
12066715 TATTATCCATTTT-AAAT-TTATATA
1 TATTATCCATTTTAAAATATTATATA
**
12066739 TATTATTTATTTTAAAATATTATATA
1 TATTATCCATTTTAAAATATTATATA
12066765 T
1 T
12066766 TATTTATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
24 11 0.48
25 4 0.17
26 8 0.35
ACGTcount: A:0.39, C:0.04, G:0.00, T:0.57
Consensus pattern (26 bp):
TATTATCCATTTTAAAATATTATATA
Found at i:12066925 original size:26 final size:24
Alignment explanation
Indices: 12066889--12066992 Score: 104
Period size: 26 Copynumber: 4.2 Consensus size: 24
12066879 AAGTATCTTA
12066889 TATATTATTTATTTGAAATTGCTTT
1 TATATTATTTATTTGAAATTG-TTT
*
12066914 GTATATTATTTA-TTGTAATTTGTTT
1 -TATATTATTTATTTG-AAATTGTTT
*
12066939 TACATATTATTTATTTTAAATTGTTT
1 T--ATATTATTTATTTGAAATTGTTT
* *
12066965 TATATTATTTACTTCG-AATTTTTT
1 TATATTATTTA-TTTGAAATTGTTT
12066989 TATA
1 TATA
12066993 ACTTATTTTG
Statistics
Matches: 67, Mismatches: 6, Indels: 12
0.79 0.07 0.14
Matches are distributed among these distances:
24 22 0.33
25 8 0.12
26 35 0.52
27 2 0.03
ACGTcount: A:0.28, C:0.04, G:0.07, T:0.62
Consensus pattern (24 bp):
TATATTATTTATTTGAAATTGTTT
Found at i:12068774 original size:28 final size:28
Alignment explanation
Indices: 12068678--12068778 Score: 121
Period size: 28 Copynumber: 3.6 Consensus size: 28
12068668 GTCAAAATCG
* * *
12068678 TAAAATCTAAAAAATAGAGGCAAAACTG
1 TAAAATCTAAAAAACAGTGGCAAAACTA
* * *
12068706 TAAAATCTGAAAAATAGTGGAAAAACTA
1 TAAAATCTAAAAAACAGTGGCAAAACTA
*
12068734 TAAAATCTAAAAAACAGTGGCAAACCTA
1 TAAAATCTAAAAAACAGTGGCAAAACTA
* *
12068762 TAAAATATGAAAAACAG
1 TAAAATCTAAAAAACAG
12068779 GGGACACAAG
Statistics
Matches: 63, Mismatches: 10, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
28 63 1.00
ACGTcount: A:0.57, C:0.11, G:0.13, T:0.19
Consensus pattern (28 bp):
TAAAATCTAAAAAACAGTGGCAAAACTA
Found at i:12069676 original size:12 final size:12
Alignment explanation
Indices: 12069661--12069702 Score: 57
Period size: 12 Copynumber: 3.3 Consensus size: 12
12069651 TTAGCATGCT
12069661 AATTTTTATCTC
1 AATTTTTATCTC
*
12069673 AATTTTTATTTC
1 AATTTTTATCTC
12069685 ATAATTTTTATCTC
1 --AATTTTTATCTC
12069699 AATT
1 AATT
12069703 CATATTTGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
12 15 0.58
14 11 0.42
ACGTcount: A:0.29, C:0.12, G:0.00, T:0.60
Consensus pattern (12 bp):
AATTTTTATCTC
Found at i:12069708 original size:26 final size:26
Alignment explanation
Indices: 12069660--12069709 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
12069650 ATTAGCATGC
**
12069660 TAATTTTTATCTCAATTTTTATTTCA
1 TAATTTTTATCTCAATTCATATTTCA
12069686 TAATTTTTATCTCAATTCATATTT
1 TAATTTTTATCTCAATTCATATTT
12069710 GTTTTAGTGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.28, C:0.12, G:0.00, T:0.60
Consensus pattern (26 bp):
TAATTTTTATCTCAATTCATATTTCA
Found at i:12070183 original size:28 final size:30
Alignment explanation
Indices: 12070152--12070223 Score: 84
Period size: 28 Copynumber: 2.6 Consensus size: 30
12070142 AAAATTATGA
12070152 AAATTATTTTTAAAAAT-A-AAAAATCAT-T
1 AAATTATTTTTAAAAATGATAAAAAT-ATAT
*
12070180 AAATT-TATTTAAAAATGATAAAAATATAT
1 AAATTATTTTTAAAAATGATAAAAATATAT
12070209 AAA-TA-TTTTAAAAAT
1 AAATTATTTTTAAAAAT
12070224 TAATTAAATG
Statistics
Matches: 38, Mismatches: 2, Indels: 8
0.79 0.04 0.17
Matches are distributed among these distances:
27 10 0.26
28 18 0.47
29 10 0.26
ACGTcount: A:0.58, C:0.01, G:0.01, T:0.39
Consensus pattern (30 bp):
AAATTATTTTTAAAAATGATAAAAATATAT
Found at i:12071119 original size:28 final size:28
Alignment explanation
Indices: 12071087--12071143 Score: 114
Period size: 28 Copynumber: 2.0 Consensus size: 28
12071077 GGTTGAAATC
12071087 ATAGAGGGTGATTTTACATTCCATTTTA
1 ATAGAGGGTGATTTTACATTCCATTTTA
12071115 ATAGAGGGTGATTTTACATTCCATTTTA
1 ATAGAGGGTGATTTTACATTCCATTTTA
12071143 A
1 A
12071144 CATTCTCACA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.30, C:0.11, G:0.18, T:0.42
Consensus pattern (28 bp):
ATAGAGGGTGATTTTACATTCCATTTTA
Found at i:12071374 original size:23 final size:26
Alignment explanation
Indices: 12071333--12071394 Score: 69
Period size: 23 Copynumber: 2.5 Consensus size: 26
12071323 ATTACGTAAA
*
12071333 TATATTACATAT-ACAATTTAA-TT-T
1 TATATTA-ATATAATAATTTAACTTAT
*
12071357 TTTA-TAATATAATAATTTAACTTAT
1 TATATTAATATAATAATTTAACTTAT
12071382 TATATTAATATAA
1 TATATTAATATAA
12071395 AAGATATAAG
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
22 4 0.13
23 10 0.32
24 5 0.16
25 4 0.13
26 8 0.26
ACGTcount: A:0.45, C:0.05, G:0.00, T:0.50
Consensus pattern (26 bp):
TATATTAATATAATAATTTAACTTAT
Found at i:12075049 original size:30 final size:31
Alignment explanation
Indices: 12074995--12075055 Score: 81
Period size: 30 Copynumber: 2.0 Consensus size: 31
12074985 ATTGATCAAG
* *
12074995 TTCCATATACATGTATCATCCATTT-CATGT
1 TTCCATATACATGTAACATACATTTCCATGT
12075025 TTCCATATACCATGTAACA-ACATTTCCATGT
1 TTCCATATA-CATGTAACATACATTTCCATGT
12075056 AATTCATGGG
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
30 14 0.52
31 13 0.48
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (31 bp):
TTCCATATACATGTAACATACATTTCCATGT
Found at i:12076163 original size:20 final size:20
Alignment explanation
Indices: 12076126--12076163 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
12076116 TGATGAGGAG
*
12076126 CAAGAATATCAAGTTGGATT
1 CAAGAATATCAAGCTGGATT
12076146 CAAGAA-ATCGAAGCTGGA
1 CAAGAATATC-AAGCTGGA
12076164 GGAGAGAGAA
Statistics
Matches: 16, Mismatches: 1, Indels: 2
0.84 0.05 0.11
Matches are distributed among these distances:
19 3 0.19
20 13 0.81
ACGTcount: A:0.42, C:0.13, G:0.24, T:0.21
Consensus pattern (20 bp):
CAAGAATATCAAGCTGGATT
Found at i:12078130 original size:46 final size:46
Alignment explanation
Indices: 12078057--12078284 Score: 305
Period size: 46 Copynumber: 5.0 Consensus size: 46
12078047 AGTGTGCTCT
* * *
12078057 CTGATATGAAATGTGTAAGACCGTGGTTGAAAGATACCATGGTAGC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
12078103 CTGGTATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
12078149 CTGATATAAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ***
12078195 GTGATATGAAATGAACAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
12078241 ATGACA-GAAAATGAGTAAGACCATAGTTGAAAGACACTATGGCA
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCA
12078285 TCATTCAAAG
Statistics
Matches: 163, Mismatches: 18, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 1 0.01
46 162 0.99
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.22
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:12089172 original size:21 final size:21
Alignment explanation
Indices: 12089148--12089202 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
12089138 ATTACTAACA
* *
12089148 GTTCATCTACAATGACT-AGTG
1 GTTCATCTACAA-CAATGAGTG
*
12089169 GTTCATCTATAACAATGAGTG
1 GTTCATCTACAACAATGAGTG
12089190 GTTCATCTACAAC
1 GTTCATCTACAAC
12089203 GTGATGTATA
Statistics
Matches: 29, Mismatches: 4, Indels: 2
0.83 0.11 0.06
Matches are distributed among these distances:
20 2 0.07
21 27 0.93
ACGTcount: A:0.31, C:0.20, G:0.16, T:0.33
Consensus pattern (21 bp):
GTTCATCTACAACAATGAGTG
Found at i:12089984 original size:12 final size:12
Alignment explanation
Indices: 12089967--12089993 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
12089957 GAAAATAGGG
12089967 TTTTAGCGGCGT
1 TTTTAGCGGCGT
12089979 TTTTAGCGGCGT
1 TTTTAGCGGCGT
12089991 TTT
1 TTT
12089994 ATCAAAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.07, C:0.15, G:0.30, T:0.48
Consensus pattern (12 bp):
TTTTAGCGGCGT
Found at i:12090153 original size:81 final size:82
Alignment explanation
Indices: 12090049--12090337 Score: 460
Period size: 81 Copynumber: 3.5 Consensus size: 82
12090039 AAACACCTCT
*
12090049 AAAAACAGAGCAATAGCGGCGTTTTTGGT-CAAACGCCGCT-AAAAACAAAGCAATAGCGGCGTT
1 AAAAACAGAGCAATAGCGGCGTTTTT-GTCCAAACGCCGCTAAAAAACAGAGCAATAGCGGCGTT
* *
12090112 TTTGGCCAAATGCCGCTA
65 TTTGGTCAAACGCCGCTA
12090130 AAAAACAGAGCAATAGCGGCGTTTTTGTCCAAACGCCGCTAAAAAACAGAGCAATAGCGGCGTTT
1 AAAAACAGAGCAATAGCGGCGTTTTTGTCCAAACGCCGCTAAAAAACAGAGCAATAGCGGCGTTT
12090195 TTGGTCAAACGCCGCT-
66 TTGGTCAAACGCCGCTA
* *
12090211 AAAAATAGAGCAATAGCGGCATTTTTGTCCAAACGCCGCTAAAAAACAGAGCAATAGCGGCGTTT
1 AAAAACAGAGCAATAGCGGCGTTTTTGTCCAAACGCCGCTAAAAAACAGAGCAATAGCGGCGTTT
12090276 TTGGTCAAACGCCGCTA
66 TTGGTCAAACGCCGCTA
* **
12090293 AAAAACTGAGCAATAGCGGCGTTTTTGCTTAAAACGCCGC-AAAAA
1 AAAAACAGAGCAATAGCGGCGTTTTTG-TCCAAACGCCGCTAAAAA
12090338 GTCATATAAC
Statistics
Matches: 194, Mismatches: 10, Indels: 7
0.92 0.05 0.03
Matches are distributed among these distances:
80 2 0.01
81 116 0.60
82 66 0.34
83 10 0.05
ACGTcount: A:0.35, C:0.22, G:0.22, T:0.20
Consensus pattern (82 bp):
AAAAACAGAGCAATAGCGGCGTTTTTGTCCAAACGCCGCTAAAAAACAGAGCAATAGCGGCGTTT
TTGGTCAAACGCCGCTA
Done.