Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr08 129432109
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: 129432109
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 420 of 425
Found at i:127576183 original size:27 final size:27
Alignment explanation
Indices: 127576153--127576271 Score: 148
Period size: 27 Copynumber: 4.4 Consensus size: 27
127576143 GTAATTTCAC
* *
127576153 AATCGAGGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTCTATA
*
127576180 AATCGAGGGTAAAACAGTAATTTTATA
1 AATCGAGGGTAAAACAGTAATTCTATA
* **
127576207 AATCGAAGGTAAAACAAAAATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTATA
* **
127576234 AATTGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTATA
*
127576261 AATCGGGGGTA
1 AATCGAGGGTA
127576272 CTTTGGTAAA
Statistics
Matches: 79, Mismatches: 13, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 79 1.00
ACGTcount: A:0.44, C:0.08, G:0.21, T:0.28
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTAATTCTATA
Found at i:127576703 original size:27 final size:27
Alignment explanation
Indices: 127576673--127576764 Score: 123
Period size: 27 Copynumber: 3.4 Consensus size: 27
127576663 GTAATTTCAC
* *
127576673 AATCAAGGGTAAAAC-GATAATTTTGTA
1 AATCAAGGGTAAAACAG-TAATTCTATA
*
127576700 AATCAAGTGTAAAACAGTAATTCTATA
1 AATCAAGGGTAAAACAGTAATTCTATA
*
127576727 AATCGAGGGTAAAACAGTAATTCTATA
1 AATCAAGGGTAAAACAGTAATTCTATA
*
127576754 AATCGAGGGTA
1 AATCAAGGGTA
127576765 CTTTGGTAAT
Statistics
Matches: 59, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
27 58 0.98
28 1 0.02
ACGTcount: A:0.45, C:0.10, G:0.18, T:0.27
Consensus pattern (27 bp):
AATCAAGGGTAAAACAGTAATTCTATA
Found at i:127576773 original size:27 final size:27
Alignment explanation
Indices: 127576715--127576901 Score: 137
Period size: 27 Copynumber: 6.9 Consensus size: 27
127576705 AGTGTAAAAC
***
127576715 AGTAATTCTATAAATCGAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAATTT
*
127576742 AGTAATTCTATAAATCGAGGGTACTTT
1 AGTAATTCTATAAATCGAGGGTAATTT
* *
127576769 GGTAATT-TTTACAAGTCGAGGGT-ATTT
1 AGTAATTCTATA-AA-TCGAGGGTAATTT
* * * *
127576796 CAGTAATTTTACAAATCAGGGGGTATTTT
1 -AGTAATTCTATAAATC-GAGGGTAATTT
* * *
127576825 AGTAATTTTATAAA-CCAGGGGTATTTT
1 AGTAATTCTATAAATCGA-GGGTAATTT
* * ***
127576852 AGTAATTTTGTAAATCGAGGGTAAAAC
1 AGTAATTCTATAAATCGAGGGTAATTT
*
127576879 GGTAATTCTATAAATCGAGGGTA
1 AGTAATTCTATAAATCGAGGGTA
127576902 GAACGGTAAT
Statistics
Matches: 128, Mismatches: 24, Indels: 16
0.76 0.14 0.10
Matches are distributed among these distances:
26 3 0.02
27 84 0.66
28 36 0.28
29 5 0.04
ACGTcount: A:0.35, C:0.09, G:0.21, T:0.35
Consensus pattern (27 bp):
AGTAATTCTATAAATCGAGGGTAATTT
Found at i:127576774 original size:54 final size:54
Alignment explanation
Indices: 127576716--127576937 Score: 178
Period size: 54 Copynumber: 4.1 Consensus size: 54
127576706 GTGTAAAACA
*
127576716 GTAATTCTATAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTACTTTG
1 GTAATTCTATAAATCGAGGGTATAACAGTAATTCTATAAATCGAGGGTACTTTG
* ** * * * * *
127576770 GTAATT-TTTACAAGTCGAGGGTATTTCAGTAATTTTACAAATCAGGGGGTATTTTA
1 GTAATTCTATA-AA-TCGAGGGTATAACAGTAATTCTATAAATC-GAGGGTACTTTG
* * *** * * ****
127576826 GTAATTTTATAAA-CCAGGGGTATTTTAGTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGA-GGGTATAACAGTAATTCTATAAATCGAGGGTACTTTG
* * * *
127576880 GTAATTCTATAAATCGAGGGTAGAACGGTAATTCTGTAAATCGGGGGTACTTTG
1 GTAATTCTATAAATCGAGGGTATAACAGTAATTCTATAAATCGAGGGTACTTTG
127576934 GTAA
1 GTAA
127576938 ACTAAAGTAT
Statistics
Matches: 129, Mismatches: 33, Indels: 12
0.74 0.19 0.07
Matches are distributed among these distances:
53 3 0.02
54 58 0.45
55 48 0.37
56 17 0.13
57 3 0.02
ACGTcount: A:0.33, C:0.09, G:0.23, T:0.34
Consensus pattern (54 bp):
GTAATTCTATAAATCGAGGGTATAACAGTAATTCTATAAATCGAGGGTACTTTG
Found at i:127576791 original size:28 final size:27
Alignment explanation
Indices: 127576753--127576874 Score: 101
Period size: 28 Copynumber: 4.4 Consensus size: 27
127576743 GTAATTCTAT
*
127576753 AAATCGAGGGTACTTTGGTAATTTTTAC
1 AAATCGAGGGTA-TTTAGTAATTTTTAC
*
127576781 AAGTCGAGGGTATTTCAGTAA-TTTTAC
1 AAATCGAGGGTATTT-AGTAATTTTTAC
* *
127576808 AAATCAGGGGGTATTTTAGTAA-TTTTAT
1 AAATC-GAGGGTA-TTTAGTAATTTTTAC
*
127576836 AAA-CCAGGGGTATTTTAGTAATTTTGT--
1 AAATCGA-GGGTA-TTTAGTAATTTT-TAC
127576863 AAATCGAGGGTA
1 AAATCGAGGGTA
127576875 AAACGGTAAT
Statistics
Matches: 79, Mismatches: 8, Indels: 15
0.77 0.08 0.15
Matches are distributed among these distances:
27 36 0.46
28 39 0.49
29 4 0.05
ACGTcount: A:0.31, C:0.08, G:0.23, T:0.38
Consensus pattern (27 bp):
AAATCGAGGGTATTTAGTAATTTTTAC
Found at i:127576936 original size:27 final size:27
Alignment explanation
Indices: 127576716--127576937 Score: 126
Period size: 27 Copynumber: 8.1 Consensus size: 27
127576706 GTGTAAAACA
*****
127576716 GTAATTCTATAAATCGAGGGTAAAACA
1 GTAATTCTATAAATCGAGGGTACTTTG
127576743 GTAATTCTATAAATCGAGGGTACTTTG
1 GTAATTCTATAAATCGAGGGTACTTTG
* *
127576770 GTAATT-TTTACAAGTCGAGGGTA-TTTCA
1 GTAATTCTATA-AA-TCGAGGGTACTTT-G
* * * * *
127576798 GTAATTTTACAAATCAGGGGGTATTTTA
1 GTAATTCTATAAATC-GAGGGTACTTTG
* * * *
127576826 GTAATTTTATAAA-CCAGGGGTATTTTA
1 GTAATTCTATAAATCGA-GGGTACTTTG
* * ****
127576853 GTAATTTTGTAAATCGAGGGTAAAACG
1 GTAATTCTATAAATCGAGGGTACTTTG
****
127576880 GTAATTCTATAAATCGAGGGTAGAACG
1 GTAATTCTATAAATCGAGGGTACTTTG
* *
127576907 GTAATTCTGTAAATCGGGGGTACTTTG
1 GTAATTCTATAAATCGAGGGTACTTTG
127576934 GTAA
1 GTAA
127576938 ACTAAAGTAT
Statistics
Matches: 158, Mismatches: 29, Indels: 16
0.78 0.14 0.08
Matches are distributed among these distances:
26 3 0.02
27 112 0.71
28 38 0.24
29 5 0.03
ACGTcount: A:0.33, C:0.09, G:0.23, T:0.34
Consensus pattern (27 bp):
GTAATTCTATAAATCGAGGGTACTTTG
Found at i:127580863 original size:31 final size:31
Alignment explanation
Indices: 127580825--127580903 Score: 131
Period size: 31 Copynumber: 2.5 Consensus size: 31
127580815 TTTAACGGTT
127580825 ACTGGGCCGAAGCCTTTTCATAAATCATATC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
* *
127580856 ACTGGGCCGAAGTCTTTTCATAAATCATTTC
1 ACTGGGCCGAAGCCTTTTCATAAATCATATC
*
127580887 ACTGGGCTGAAGCCTTT
1 ACTGGGCCGAAGCCTTT
127580904 ACTGTAAACG
Statistics
Matches: 44, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
31 44 1.00
ACGTcount: A:0.25, C:0.24, G:0.19, T:0.32
Consensus pattern (31 bp):
ACTGGGCCGAAGCCTTTTCATAAATCATATC
Found at i:127580974 original size:42 final size:40
Alignment explanation
Indices: 127580927--127581016 Score: 117
Period size: 40 Copynumber: 2.2 Consensus size: 40
127580917 TGGCCCATAG
* ** *
127580927 GCCCATTTCAATATCACATGTAATGTCAATGGATGTATGCAA
1 GCCCATTTCAATAT--CATGAAATACCAATGAATGTATGCAA
*
127580969 GCCCATTTCAATATTATGAAATACCAATGAATGTATGCAA
1 GCCCATTTCAATATCATGAAATACCAATGAATGTATGCAA
127581009 GCCCATTT
1 GCCCATTT
127581017 GGGGAGACTA
Statistics
Matches: 43, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
40 29 0.67
42 14 0.33
ACGTcount: A:0.34, C:0.20, G:0.14, T:0.31
Consensus pattern (40 bp):
GCCCATTTCAATATCATGAAATACCAATGAATGTATGCAA
Found at i:127581195 original size:26 final size:26
Alignment explanation
Indices: 127581111--127581246 Score: 190
Period size: 26 Copynumber: 5.3 Consensus size: 26
127581101 TTGGAGGCCT
127581111 AGCCTCTTTT-AAT-AACTGGGGCA-A
1 AGCC-CTTTTCAATAAACTGGGGCATA
** *
127581135 AGCCCTTTTCGGTAAATTGGGGCA-A
1 AGCCCTTTTCAATAAACTGGGGCATA
127581160 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
**
127581186 AGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
127581212 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATA
127581238 AGCCCTTTT
1 AGCCCTTTT
127581247 GCACTTCCTC
Statistics
Matches: 99, Mismatches: 10, Indels: 4
0.88 0.09 0.04
Matches are distributed among these distances:
23 5 0.05
24 5 0.05
25 31 0.31
26 58 0.59
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (26 bp):
AGCCCTTTTCAATAAACTGGGGCATA
Found at i:127581234 original size:52 final size:51
Alignment explanation
Indices: 127581111--127581246 Score: 224
Period size: 52 Copynumber: 2.7 Consensus size: 51
127581101 TTGGAGGCCT
*
127581111 AGCCTCTTTT-AAT-AACTGGGGCA-AAGCCCTTTTCGGTAAATTGGGGCAA
1 AGCC-CTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAA
127581160 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCA-A
127581212 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
1 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTT
127581247 GCACTTCCTC
Statistics
Matches: 82, Mismatches: 1, Indels: 5
0.93 0.01 0.06
Matches are distributed among these distances:
48 5 0.06
49 7 0.09
50 10 0.12
51 24 0.29
52 36 0.44
ACGTcount: A:0.26, C:0.23, G:0.22, T:0.29
Consensus pattern (51 bp):
AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCAA
Found at i:127581321 original size:20 final size:20
Alignment explanation
Indices: 127581296--127581382 Score: 131
Period size: 20 Copynumber: 4.3 Consensus size: 20
127581286 TTATGAATAC
127581296 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
127581316 ATCATGTGCATTTCATACAT
1 ATCATGTGCATTTCATACAT
* *
127581336 ATCATATGCATTTTATACAT
1 ATCATGTGCATTTCATACAT
*
127581356 ATCATGTGCATATCATATCA-
1 ATCATGTGCATTTCATA-CAT
127581376 ATCATGT
1 ATCATGT
127581383 ATATCATATC
Statistics
Matches: 61, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
20 59 0.97
21 2 0.03
ACGTcount: A:0.32, C:0.18, G:0.09, T:0.40
Consensus pattern (20 bp):
ATCATGTGCATTTCATACAT
Found at i:127582213 original size:27 final size:27
Alignment explanation
Indices: 127582183--127582336 Score: 150
Period size: 27 Copynumber: 5.7 Consensus size: 27
127582173 TTTCATCCTA
* * *
127582183 CAAGGGTGTTTTGGTAAATCTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
** **
127582210 CAAGGGTATTTTTATAATTTTGTAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
*
127582237 CAGGGGTATTTTGGTAATTTTACAAAT
1 CAAGGGTATTTTGGTAATTTTACAAAT
* * *
127582264 TAAGGGTATTTCGGTAATTTCACAAA-
1 CAAGGGTATTTTGGTAATTTTACAAAT
* *
127582290 CCAGTGGTATTTTGGTAATTATACAAA-
1 CAAG-GGTATTTTGGTAATTTTACAAAT
*
127582317 CTAAGGGTGTTTTGGTAATT
1 C-AAGGGTATTTTGGTAATT
127582337 CTACCCTATA
Statistics
Matches: 102, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
26 2 0.02
27 98 0.96
28 2 0.02
ACGTcount: A:0.31, C:0.08, G:0.21, T:0.40
Consensus pattern (27 bp):
CAAGGGTATTTTGGTAATTTTACAAAT
Found at i:127582282 original size:54 final size:54
Alignment explanation
Indices: 127582186--127582336 Score: 167
Period size: 54 Copynumber: 2.8 Consensus size: 54
127582176 CATCCTACAA
* * * * ** *** *
127582186 GGGTGTTTTGGTAAATCTACAAATCAAGGGTATTTTTATAATTTTGTAAATCAG
1 GGGTATTTTGGTAATTATACAAATTAAGGGTATTTTGGTAATTTCACAAACCAG
* *
127582240 GGGTATTTTGGTAATTTTACAAATTAAGGGTATTTCGGTAATTTCACAAACCAG
1 GGGTATTTTGGTAATTATACAAATTAAGGGTATTTTGGTAATTTCACAAACCAG
* * *
127582294 TGGTATTTTGGTAATTATACAAACTAAGGGTGTTTTGGTAATT
1 GGGTATTTTGGTAATTATACAAATTAAGGGTATTTTGGTAATT
127582337 CTACCCTATA
Statistics
Matches: 81, Mismatches: 16, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
54 81 1.00
ACGTcount: A:0.30, C:0.08, G:0.21, T:0.40
Consensus pattern (54 bp):
GGGTATTTTGGTAATTATACAAATTAAGGGTATTTTGGTAATTTCACAAACCAG
Found at i:127582398 original size:27 final size:27
Alignment explanation
Indices: 127582368--127582484 Score: 139
Period size: 27 Copynumber: 4.4 Consensus size: 27
127582358 GTAATTTCAC
* *
127582368 AATCGAGGGTAAAACAGTAATTTTGTA
1 AATCGAGGGTAAAACAGTAATTCTATA
127582395 AATCGAGGGTAAAACAGTAATT-T-TA
1 AATCGAGGGTAAAACAGTAATTCTATA
* **
127582420 AATCGAAGGTAAAACAAAAATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTATA
* **
127582447 AATTGAGGGTAAAATGGTAATTCTATA
1 AATCGAGGGTAAAACAGTAATTCTATA
*
127582474 AATCGGGGGTA
1 AATCGAGGGTA
127582485 CTTTGGTAAA
Statistics
Matches: 77, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
25 21 0.27
26 2 0.03
27 54 0.70
ACGTcount: A:0.44, C:0.08, G:0.21, T:0.27
Consensus pattern (27 bp):
AATCGAGGGTAAAACAGTAATTCTATA
Found at i:127582449 original size:52 final size:52
Alignment explanation
Indices: 127582356--127582478 Score: 138
Period size: 52 Copynumber: 2.3 Consensus size: 52
127582346 AGGGGTATTT
* * ** * *
127582356 CAGTAATTTCACAATCGAGGGTAAAACAGTAATTTTGTAAATCGAGGGTAAAA
1 CAGTAATTTTA-AATCGAAGGTAAAACAAAAATTCTATAAATCGAGGGTAAAA
*
127582409 CAGTAATTTTAAATCGAAGGTAAAACAAAAATTCTATAAATTGAGGGTAAAA
1 CAGTAATTTTAAATCGAAGGTAAAACAAAAATTCTATAAATCGAGGGTAAAA
**
127582461 TGGTAATTCTATAAATCG
1 CAGTAATT-T-TAAATCG
127582479 GGGGTACTTT
Statistics
Matches: 59, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
52 41 0.69
53 11 0.19
54 7 0.12
ACGTcount: A:0.44, C:0.10, G:0.18, T:0.28
Consensus pattern (52 bp):
CAGTAATTTTAAATCGAAGGTAAAACAAAAATTCTATAAATCGAGGGTAAAA
Found at i:127585831 original size:27 final size:29
Alignment explanation
Indices: 127585766--127585836 Score: 85
Period size: 31 Copynumber: 2.4 Consensus size: 29
127585756 TAATTATTTG
127585766 AAAGTTTTTATTTAAGTCATTGAACTATT
1 AAAGTTTTTATTTAAGTCATTGAACTATT
*
127585795 CAAAAGTTTTTATTTAAGTCACTT-AGCTATT
1 --AAAGTTTTTATTTAAGTCA-TTGAACTATT
127585826 -AA-TTTTTATTT
1 AAAGTTTTTATTT
127585837 TTTTTTAAGT
Statistics
Matches: 38, Mismatches: 1, Indels: 6
0.84 0.02 0.13
Matches are distributed among these distances:
27 9 0.24
28 2 0.05
31 25 0.66
32 2 0.05
ACGTcount: A:0.32, C:0.08, G:0.08, T:0.51
Consensus pattern (29 bp):
AAAGTTTTTATTTAAGTCATTGAACTATT
Found at i:127588391 original size:41 final size:41
Alignment explanation
Indices: 127588330--127588413 Score: 132
Period size: 41 Copynumber: 2.0 Consensus size: 41
127588320 TTAACCTTCT
* *
127588330 ATTTAAGGATCTAACTCAACTCGACTTCTGATATAATCAAA
1 ATTTAAAGATCTAACCCAACTCGACTTCTGATATAATCAAA
* *
127588371 ATTTAAAGATCTAACCCAACTCGTCTTTTGATATAATCAAA
1 ATTTAAAGATCTAACCCAACTCGACTTCTGATATAATCAAA
127588412 AT
1 AT
127588414 CCAATATCAC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
41 39 1.00
ACGTcount: A:0.39, C:0.19, G:0.08, T:0.33
Consensus pattern (41 bp):
ATTTAAAGATCTAACCCAACTCGACTTCTGATATAATCAAA
Found at i:127588855 original size:21 final size:22
Alignment explanation
Indices: 127588831--127588878 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 22
127588821 ATACAAATAC
*
127588831 ATAAATATCTT-AATATATATA
1 ATAAATATCTTAAAAATATATA
*
127588852 ATAAA-ATTTTAAAAATATATA
1 ATAAATATCTTAAAAATATATA
127588873 A-AAATA
1 ATAAATA
127588879 ATATTGTTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
20 7 0.30
21 16 0.70
ACGTcount: A:0.60, C:0.02, G:0.00, T:0.38
Consensus pattern (22 bp):
ATAAATATCTTAAAAATATATA
Found at i:127596429 original size:17 final size:17
Alignment explanation
Indices: 127596407--127596439 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
127596397 TTTGGATAGA
127596407 AAATAACAAA-GAAAATC
1 AAATAA-AAAGGAAAATC
127596424 AAATAAAAAGGAAAAT
1 AAATAAAAAGGAAAAT
127596440 AGTGAAAGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.73, C:0.06, G:0.09, T:0.12
Consensus pattern (17 bp):
AAATAAAAAGGAAAATC
Found at i:127599233 original size:18 final size:20
Alignment explanation
Indices: 127599206--127599243 Score: 53
Period size: 18 Copynumber: 2.0 Consensus size: 20
127599196 AATCATTTCC
*
127599206 AAATTGTTTT-TTT-TTTTT
1 AAATTCTTTTCTTTCTTTTT
127599224 AAATTCTTTTCTTTCTTTTT
1 AAATTCTTTTCTTTCTTTTT
127599244 TCTCTGAAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
18 9 0.53
19 3 0.18
20 5 0.29
ACGTcount: A:0.16, C:0.08, G:0.03, T:0.74
Consensus pattern (20 bp):
AAATTCTTTTCTTTCTTTTT
Found at i:127603818 original size:41 final size:41
Alignment explanation
Indices: 127603722--127603804 Score: 166
Period size: 41 Copynumber: 2.0 Consensus size: 41
127603712 GAAGAAGAAG
127603722 AAGAAAAAACCAATTGAAAATGAGGAATAGAAGCTTAAATA
1 AAGAAAAAACCAATTGAAAATGAGGAATAGAAGCTTAAATA
127603763 AAGAAAAAACCAATTGAAAATGAGGAATAGAAGCTTAAATA
1 AAGAAAAAACCAATTGAAAATGAGGAATAGAAGCTTAAATA
127603804 A
1 A
127603805 TTAAATGGGC
Statistics
Matches: 42, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 42 1.00
ACGTcount: A:0.59, C:0.07, G:0.17, T:0.17
Consensus pattern (41 bp):
AAGAAAAAACCAATTGAAAATGAGGAATAGAAGCTTAAATA
Found at i:127607126 original size:46 final size:44
Alignment explanation
Indices: 127607029--127607127 Score: 103
Period size: 45 Copynumber: 2.2 Consensus size: 44
127607019 ATAAATTATG
* *
127607029 ATATAAAACTTATTTCAGTTTATTAAAATTTAATTAAAATATAAA
1 ATAT-AAACTTAATTCAGTTTATTAAAATTTAAATAAAATATAAA
*
127607074 ATTATAAACTTAATTCAGTTT-TT-AAATTATAAAATATAAATAATAGA
1 A-TATAAACTTAATTCAGTTTATTAAAATT-T-AAATA-AAAT-ATAAA
127607121 ATATAAA
1 ATATAAA
127607128 TTGTTCAATA
Statistics
Matches: 46, Mismatches: 3, Indels: 9
0.79 0.05 0.16
Matches are distributed among these distances:
43 5 0.11
44 3 0.07
45 20 0.43
46 13 0.28
47 5 0.11
ACGTcount: A:0.53, C:0.04, G:0.03, T:0.40
Consensus pattern (44 bp):
ATATAAACTTAATTCAGTTTATTAAAATTTAAATAAAATATAAA
Found at i:127610572 original size:26 final size:26
Alignment explanation
Indices: 127610526--127610575 Score: 68
Period size: 26 Copynumber: 1.9 Consensus size: 26
127610516 TTCGCTCTTT
127610526 TATATAATATAAACAATAATATATCG
1 TATATAATATAAACAATAATATATCG
127610552 TATATAA-ATAAGAC-ATAAATATAT
1 TATATAATATAA-ACAAT-AATATAT
127610576 TATCATATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
25 6 0.27
26 16 0.73
ACGTcount: A:0.56, C:0.06, G:0.04, T:0.34
Consensus pattern (26 bp):
TATATAATATAAACAATAATATATCG
Found at i:127610768 original size:21 final size:21
Alignment explanation
Indices: 127610725--127610768 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
127610715 ATATATTATG
* * * *
127610725 TATAAATAGTATAAATTACTA
1 TATAAATAATAAAAAATAATA
127610746 TATAAATAATAAAAAATAATA
1 TATAAATAATAAAAAATAATA
127610767 TA
1 TA
127610769 CATTATTATA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.61, C:0.02, G:0.02, T:0.34
Consensus pattern (21 bp):
TATAAATAATAAAAAATAATA
Found at i:127611134 original size:16 final size:16
Alignment explanation
Indices: 127611108--127611161 Score: 99
Period size: 16 Copynumber: 3.3 Consensus size: 16
127611098 ATTAGGTTAT
127611108 AACTCTTATGTAAGCAA
1 AACT-TTATGTAAGCAA
127611125 AACTTTATGTAAGCAA
1 AACTTTATGTAAGCAA
127611141 AACTTTATGTAAGCAA
1 AACTTTATGTAAGCAA
127611157 AACTT
1 AACTT
127611162 AAGTAGTATA
Statistics
Matches: 37, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
16 33 0.89
17 4 0.11
ACGTcount: A:0.43, C:0.15, G:0.11, T:0.31
Consensus pattern (16 bp):
AACTTTATGTAAGCAA
Found at i:127615433 original size:16 final size:15
Alignment explanation
Indices: 127615403--127615432 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
127615393 ATTTTAAGTA
127615403 ACTTTAGTTTTTTTT
1 ACTTTAGTTTTTTTT
127615418 ACTTTAGTTTTTTTT
1 ACTTTAGTTTTTTTT
127615433 TGTTGTTTTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.07, G:0.07, T:0.73
Consensus pattern (15 bp):
ACTTTAGTTTTTTTT
Found at i:127615508 original size:11 final size:12
Alignment explanation
Indices: 127615480--127615508 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
127615470 GTTATTAATA
127615480 TAATTTAGTTCT
1 TAATTTAGTTCT
127615492 TAATTTAGTTC-
1 TAATTTAGTTCT
127615503 TAATTT
1 TAATTT
127615509 GTTTCAATTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
11 6 0.35
12 11 0.65
ACGTcount: A:0.28, C:0.07, G:0.07, T:0.59
Consensus pattern (12 bp):
TAATTTAGTTCT
Found at i:127615651 original size:25 final size:22
Alignment explanation
Indices: 127615599--127615669 Score: 69
Period size: 20 Copynumber: 3.3 Consensus size: 22
127615589 CATTTTTTAT
*
127615599 TTTATTTTGTTTT-AATATTTG
1 TTTATTATGTTTTAAATATTTG
127615620 TTT-TTATGTTTTAAATGCATTTG
1 TTTATTATGTTTTAAAT--ATTTG
*
127615643 ATTTATTATATTTTAAAT-TTT-
1 -TTTATTATGTTTTAAATATTTG
127615664 TTTATT
1 TTTATT
127615670 TAATAAAAAA
Statistics
Matches: 43, Mismatches: 2, Indels: 11
0.77 0.04 0.20
Matches are distributed among these distances:
20 14 0.33
21 6 0.14
22 3 0.07
23 5 0.12
24 3 0.07
25 12 0.28
ACGTcount: A:0.24, C:0.01, G:0.07, T:0.68
Consensus pattern (22 bp):
TTTATTATGTTTTAAATATTTG
Found at i:127616150 original size:14 final size:14
Alignment explanation
Indices: 127616131--127616173 Score: 61
Period size: 14 Copynumber: 3.0 Consensus size: 14
127616121 GATGATATAT
127616131 AAGACTCATA-CACC
1 AAGACT-ATATCACC
127616145 AAGACTATATCACC
1 AAGACTATATCACC
127616159 AAGACTATATTCACC
1 AAGACTATA-TCACC
127616174 GTTTCTTAAA
Statistics
Matches: 27, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
13 3 0.11
14 19 0.70
15 5 0.19
ACGTcount: A:0.42, C:0.30, G:0.07, T:0.21
Consensus pattern (14 bp):
AAGACTATATCACC
Found at i:127617027 original size:19 final size:19
Alignment explanation
Indices: 127617005--127617043 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
127616995 TATTTATCTT
127617005 ATATAAAAAAAAATAAAAA
1 ATATAAAAAAAAATAAAAA
* * *
127617024 ATATATAAATATATAAAAA
1 ATATAAAAAAAAATAAAAA
127617043 A
1 A
127617044 ACTTCATATG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (19 bp):
ATATAAAAAAAAATAAAAA
Found at i:127620224 original size:21 final size:20
Alignment explanation
Indices: 127620187--127620225 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
127620177 TTCAATTATT
*
127620187 TATATTTAATAAATTAATAA
1 TATAATTAATAAATTAATAA
127620207 TATAATTAATATAATTAAT
1 TATAATTAATA-AATTAAT
127620226 TATTTTAATA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 10 0.59
21 7 0.41
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (20 bp):
TATAATTAATAAATTAATAA
Found at i:127620225 original size:13 final size:13
Alignment explanation
Indices: 127620192--127620248 Score: 50
Period size: 13 Copynumber: 4.5 Consensus size: 13
127620182 TTATTTATAT
127620192 TTAATA-AATTAA
1 TTAATATAATTAA
127620204 -TAATATAATTAA
1 TTAATATAATTAA
*
127620216 TATAAT-TAATTATT
1 T-TAATATAATTA-A
*
127620230 TTAATA-AATTAT
1 TTAATATAATTAA
127620242 TTAATAT
1 TTAATAT
127620249 TTCAATTTTA
Statistics
Matches: 38, Mismatches: 1, Indels: 11
0.76 0.02 0.22
Matches are distributed among these distances:
11 5 0.13
12 13 0.34
13 15 0.39
14 5 0.13
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (13 bp):
TTAATATAATTAA
Found at i:127620283 original size:15 final size:14
Alignment explanation
Indices: 127620258--127620297 Score: 57
Period size: 13 Copynumber: 2.9 Consensus size: 14
127620248 TTTCAATTTT
127620258 ATTTT-AATAATAA
1 ATTTTAAATAATAA
127620271 ATTTTAAAATAAT-A
1 ATTTT-AAATAATAA
127620285 ATTTTAAATAATA
1 ATTTTAAATAATA
127620298 TTCTTCACAT
Statistics
Matches: 24, Mismatches: 0, Indels: 5
0.83 0.00 0.17
Matches are distributed among these distances:
13 12 0.50
14 6 0.25
15 6 0.25
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (14 bp):
ATTTTAAATAATAA
Found at i:127620503 original size:87 final size:89
Alignment explanation
Indices: 127620367--127620589 Score: 265
Period size: 88 Copynumber: 2.5 Consensus size: 89
127620357 ACTTTTTCAA
* * * **
127620367 AAAAAAAAAACAATTAAGTCCTTGTTCTTTTTTTT-TACTCAATTAGGTATTTGAACTTTC-AAA
1 AAAAAAAAAACAATTAAGCCCTT-TT-TTTTTTTTGCACTTAATTAGGTATTTGAACTACCAAAA
127620430 TGCACCAAAAA-GACCCTCAAAC-TTT
64 TGCACCAAAAATG-CCCTCAAACTTTT
* * *
127620455 AAAAAAAAAACACTTCAGCCCTTTTTTTTTTTTGCACTTAATTGGGTATTTGAACTACCAAAATG
1 AAAAAAAAAACAATTAAGCCCTTTTTTTTTTTTGCACTTAATTAGGTATTTGAACTACCAAAATG
*
127620520 CATCAAAAATGCCCTCAAACTTTT
66 CACCAAAAATGCCCTCAAACTTTT
** **
127620544 TCAAAAAAAACAATTAAGTCCCTACTTTTTTTTTGCACTTAATTAG
1 AAAAAAAAAACAATTAAG-CCCTTTTTTTTTTTTGCACTTAATTAG
127620590 ACACTTTAAT
Statistics
Matches: 114, Mismatches: 16, Indels: 8
0.83 0.12 0.06
Matches are distributed among these distances:
86 8 0.07
87 22 0.19
88 42 0.37
89 18 0.16
90 24 0.21
ACGTcount: A:0.37, C:0.19, G:0.08, T:0.36
Consensus pattern (89 bp):
AAAAAAAAAACAATTAAGCCCTTTTTTTTTTTTGCACTTAATTAGGTATTTGAACTACCAAAATG
CACCAAAAATGCCCTCAAACTTTT
Found at i:127620866 original size:20 final size:21
Alignment explanation
Indices: 127620841--127620890 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
127620831 GTAAGAAAGT
* *
127620841 TATAAAAAATGT-TAAAGAAA
1 TATAAAAAATGTAAAAAAAAA
**
127620861 TATAAAAGTTGTAAAAAAAAA
1 TATAAAAAATGTAAAAAAAAA
127620882 TATAAAAAA
1 TATAAAAAA
127620891 CTATTGTACC
Statistics
Matches: 23, Mismatches: 6, Indels: 1
0.77 0.20 0.03
Matches are distributed among these distances:
20 10 0.43
21 13 0.57
ACGTcount: A:0.68, C:0.00, G:0.08, T:0.24
Consensus pattern (21 bp):
TATAAAAAATGTAAAAAAAAA
Found at i:127621095 original size:22 final size:22
Alignment explanation
Indices: 127621069--127621115 Score: 60
Period size: 22 Copynumber: 2.1 Consensus size: 22
127621059 TCAAAGCGTC
*
127621069 TTTTTGATGCA-TTTTATAAATT
1 TTTTTGATG-ATTTTTATAAAAT
*
127621091 TTTTTTATGATTTTTATAAAAT
1 TTTTTGATGATTTTTATAAAAT
127621113 TTT
1 TTT
127621116 ACAATTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
21 1 0.05
22 21 0.95
ACGTcount: A:0.28, C:0.02, G:0.06, T:0.64
Consensus pattern (22 bp):
TTTTTGATGATTTTTATAAAAT
Found at i:127621217 original size:55 final size:56
Alignment explanation
Indices: 127621113--127621217 Score: 126
Period size: 55 Copynumber: 1.9 Consensus size: 56
127621103 TTTATAAAAT
* * *
127621113 TTTACAATTTTTTTATATTTTTTACTATTTATACATATTTCTAATTTTTAATGAAA
1 TTTACAATATTTTTATATTTTTTACAATTTATACATATTTCTAACTTTTAATGAAA
* *
127621169 TTTA-AATATTTTTATATTTTATTA-AATTTAATA-ATTTTTGTAACTTTTA
1 TTTACAATATTTTTATATTTT-TTACAATTT-ATACATATTTCTAACTTTTA
127621218 TTTTTTATAG
Statistics
Matches: 42, Mismatches: 5, Indels: 5
0.81 0.10 0.10
Matches are distributed among these distances:
55 32 0.76
56 10 0.24
ACGTcount: A:0.33, C:0.05, G:0.02, T:0.60
Consensus pattern (56 bp):
TTTACAATATTTTTATATTTTTTACAATTTATACATATTTCTAACTTTTAATGAAA
Found at i:127622468 original size:21 final size:20
Alignment explanation
Indices: 127622434--127622472 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
127622424 ATAATAAAAT
*
127622434 ATTTATATATTTTATAATTAA
1 ATTTATATAATTTA-AATTAA
*
127622455 ATTTATTTAATTTAAATT
1 ATTTATATAATTTAAATT
127622473 GAAGTCCTAT
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 4 0.25
21 12 0.75
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (20 bp):
ATTTATATAATTTAAATTAA
Found at i:127622591 original size:25 final size:25
Alignment explanation
Indices: 127622563--127622614 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
127622553 TTGAGCTGGG
127622563 AATGGATCTAATCGTCACTAAATAT
1 AATGGATCTAATCGTCACTAAATAT
127622588 AATGGATCTAATCGTCACTAAATAT
1 AATGGATCTAATCGTCACTAAATAT
127622613 AA
1 AA
127622615 GATATACTAA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.42, C:0.15, G:0.12, T:0.31
Consensus pattern (25 bp):
AATGGATCTAATCGTCACTAAATAT
Found at i:127623552 original size:26 final size:26
Alignment explanation
Indices: 127623523--127623587 Score: 69
Period size: 26 Copynumber: 2.5 Consensus size: 26
127623513 TATTAACTAT
*
127623523 TTAAATTAAATAAT-TATATTATAAAA
1 TTAAAGTAAATAATATATA-TATAAAA
* *
127623549 TTAAAGTAACTAATATATATATTAAA
1 TTAAAGTAAATAATATATATATAAAA
* *
127623575 TTAGAGTATATAA
1 TTAAAGTAAATAA
127623588 ATTAAATATT
Statistics
Matches: 32, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
26 28 0.88
27 4 0.12
ACGTcount: A:0.54, C:0.02, G:0.05, T:0.40
Consensus pattern (26 bp):
TTAAAGTAAATAATATATATATAAAA
Found at i:127624062 original size:4 final size:4
Alignment explanation
Indices: 127624053--127624081 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
127624043 TATGACTGTT
127624053 TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA T
127624082 ATATGGCATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TTTA
Found at i:127639434 original size:23 final size:22
Alignment explanation
Indices: 127639408--127639450 Score: 59
Period size: 23 Copynumber: 1.9 Consensus size: 22
127639398 ACTTAGGTAC
*
127639408 TTAACTGGAAAATAACTCAAGTA
1 TTAAATGGAAAA-AACTCAAGTA
*
127639431 TTAAATTGAAAAAACTCAAG
1 TTAAATGGAAAAAACTCAAG
127639451 CACCAAATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 8 0.44
23 10 0.56
ACGTcount: A:0.51, C:0.12, G:0.12, T:0.26
Consensus pattern (22 bp):
TTAAATGGAAAAAACTCAAGTA
Found at i:127639458 original size:22 final size:23
Alignment explanation
Indices: 127639415--127639462 Score: 62
Period size: 22 Copynumber: 2.1 Consensus size: 23
127639405 TACTTAACTG
* **
127639415 GAAAATAACTCAAGTATTAAATT
1 GAAAATAACTCAAGCACCAAATT
127639438 GAAAA-AACTCAAGCACCAAATT
1 GAAAATAACTCAAGCACCAAATT
127639460 GAA
1 GAA
127639463 CATTGAAACC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
22 17 0.77
23 5 0.23
ACGTcount: A:0.54, C:0.15, G:0.10, T:0.21
Consensus pattern (23 bp):
GAAAATAACTCAAGCACCAAATT
Found at i:127645123 original size:57 final size:56
Alignment explanation
Indices: 127645056--127645166 Score: 195
Period size: 57 Copynumber: 2.0 Consensus size: 56
127645046 CATGTTTCTG
* *
127645056 TAAAATGTTTAATTTCAATGCATATTAACATCATTTGGTCATTTTCTAATTTATTTC
1 TAAAATGTTTAATTTCAATGCATATTAACAT-AATTAGTCATTTTCTAATTTATTTC
127645113 TAAAATGTTTAATTTCAATGCATATTAACATAATTAGTCATTTTCTAATTTATT
1 TAAAATGTTTAATTTCAATGCATATTAACATAATTAGTCATTTTCTAATTTATT
127645167 GGAAGTACCA
Statistics
Matches: 52, Mismatches: 2, Indels: 1
0.95 0.04 0.02
Matches are distributed among these distances:
56 21 0.40
57 31 0.60
ACGTcount: A:0.34, C:0.11, G:0.06, T:0.49
Consensus pattern (56 bp):
TAAAATGTTTAATTTCAATGCATATTAACATAATTAGTCATTTTCTAATTTATTTC
Found at i:127645401 original size:21 final size:20
Alignment explanation
Indices: 127645362--127645399 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
127645352 ATTTATATTT
127645362 AAATTATATATATATTTTTA
1 AAATTATATATATATTTTTA
*
127645382 AAATTA-ATATTTATTTTT
1 AAATTATATATATATTTTT
127645400 TTTCTTTTTA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
AAATTATATATATATTTTTA
Found at i:127650670 original size:16 final size:17
Alignment explanation
Indices: 127650639--127650671 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
127650629 GATACTCATT
127650639 CCCATGTTCTTCCGATC
1 CCCATGTTCTTCCGATC
127650656 CCCATGTTCTT-CGATC
1 CCCATGTTCTTCCGATC
127650672 TCTTTAAAGT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 5 0.31
17 11 0.69
ACGTcount: A:0.12, C:0.39, G:0.12, T:0.36
Consensus pattern (17 bp):
CCCATGTTCTTCCGATC
Found at i:127653800 original size:16 final size:16
Alignment explanation
Indices: 127653739--127653801 Score: 58
Period size: 16 Copynumber: 3.9 Consensus size: 16
127653729 CAATTAATTC
127653739 AATTTTATTTATTTAA
1 AATTTTATTTATTTAA
* *
127653755 TATTATATTATATTATAAA
1 AATTTTATT-TATT-T-AA
*
127653774 AACTTTA--TATTTAA
1 AATTTTATTTATTTAA
127653788 AATTTTATTTATTT
1 AATTTTATTTATTT
127653802 TTAGAAACAT
Statistics
Matches: 36, Mismatches: 6, Indels: 10
0.69 0.12 0.19
Matches are distributed among these distances:
14 8 0.22
15 1 0.03
16 16 0.44
17 4 0.11
18 1 0.03
19 6 0.17
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.59
Consensus pattern (16 bp):
AATTTTATTTATTTAA
Found at i:127654780 original size:17 final size:17
Alignment explanation
Indices: 127654754--127654790 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
127654744 ATCGTAACAA
*
127654754 ATATATGGTAAAATATT
1 ATATAAGGTAAAATATT
*
127654771 ATATAAGGTAATATATT
1 ATATAAGGTAAAATATT
127654788 ATA
1 ATA
127654791 ATATATATGA
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.11, T:0.41
Consensus pattern (17 bp):
ATATAAGGTAAAATATT
Found at i:127665771 original size:14 final size:15
Alignment explanation
Indices: 127665752--127665781 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
127665742 TTTTTAAATA
127665752 TATATTA-TATAATT
1 TATATTATTATAATT
127665766 TATATTATTATAATT
1 TATATTATTATAATT
127665781 T
1 T
127665782 TTTTAAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 7 0.47
15 8 0.53
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (15 bp):
TATATTATTATAATT
Found at i:127666046 original size:25 final size:25
Alignment explanation
Indices: 127665998--127666046 Score: 64
Period size: 25 Copynumber: 2.0 Consensus size: 25
127665988 TATGCTATAC
*
127665998 ATATTTAAAATATGTAAAATTGTTT
1 ATATTTAAAATATGTAAAAATGTTT
*
127666023 ATATTTAAAA-ATTTAATAAATGTT
1 ATATTTAAAATATGTAA-AAATGTT
127666047 AAATTTTAAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 5 0.24
25 16 0.76
ACGTcount: A:0.47, C:0.00, G:0.06, T:0.47
Consensus pattern (25 bp):
ATATTTAAAATATGTAAAAATGTTT
Found at i:127666983 original size:2 final size:2
Alignment explanation
Indices: 127666976--127667000 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
127666966 AAATAAATAA
127666976 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 A
127667001 ACATGTAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:127667139 original size:33 final size:33
Alignment explanation
Indices: 127667102--127667164 Score: 108
Period size: 33 Copynumber: 1.9 Consensus size: 33
127667092 ATGTTGACTT
*
127667102 ACAAAGTTATAAATACGAAAAAATTATCAATTA
1 ACAAAATTATAAATACGAAAAAATTATCAATTA
*
127667135 ACAAAATTATAAATACTAAAAAATTATCAA
1 ACAAAATTATAAATACGAAAAAATTATCAA
127667165 GGATAATAAC
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
33 28 1.00
ACGTcount: A:0.60, C:0.10, G:0.03, T:0.27
Consensus pattern (33 bp):
ACAAAATTATAAATACGAAAAAATTATCAATTA
Found at i:127667142 original size:16 final size:16
Alignment explanation
Indices: 127667119--127667164 Score: 58
Period size: 16 Copynumber: 2.8 Consensus size: 16
127667109 TATAAATACG
127667119 AAAAAATTATCAAT-T
1 AAAAAATTATCAATAT
*
127667134 AACAAAATTATAAATACT
1 AA-AAAATTATCAATA-T
127667152 AAAAAATTATCAA
1 AAAAAATTATCAA
127667165 GGATAATAAC
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
15 2 0.08
16 11 0.42
17 10 0.38
18 3 0.12
ACGTcount: A:0.63, C:0.09, G:0.00, T:0.28
Consensus pattern (16 bp):
AAAAAATTATCAATAT
Found at i:127667157 original size:17 final size:17
Alignment explanation
Indices: 127667108--127667161 Score: 67
Period size: 17 Copynumber: 3.2 Consensus size: 17
127667098 ACTTACAAAG
*
127667108 TTATAAATACGAAAAAA
1 TTATAAATACTAAAAAA
*
127667125 TTATCAAT--TAACAAAA
1 TTATAAATACTAA-AAAA
127667141 TTATAAATACTAAAAAA
1 TTATAAATACTAAAAAA
127667158 TTAT
1 TTAT
127667162 CAAGGATAAT
Statistics
Matches: 31, Mismatches: 3, Indels: 6
0.77 0.08 0.15
Matches are distributed among these distances:
15 2 0.06
16 11 0.35
17 15 0.48
18 3 0.10
ACGTcount: A:0.59, C:0.07, G:0.02, T:0.31
Consensus pattern (17 bp):
TTATAAATACTAAAAAA
Found at i:127668341 original size:3 final size:3
Alignment explanation
Indices: 127668333--127668360 Score: 56
Period size: 3 Copynumber: 9.3 Consensus size: 3
127668323 GTAAAAACAA
127668333 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT A
127668361 CGAGAATGTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 25 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:127669752 original size:48 final size:48
Alignment explanation
Indices: 127669699--127669795 Score: 194
Period size: 48 Copynumber: 2.0 Consensus size: 48
127669689 AAAAGGACTA
127669699 AGAATTTTTTTTTATTAATGTATTATTATTGAAATTTGTAGCCTTGCC
1 AGAATTTTTTTTTATTAATGTATTATTATTGAAATTTGTAGCCTTGCC
127669747 AGAATTTTTTTTTATTAATGTATTATTATTGAAATTTGTAGCCTTGCC
1 AGAATTTTTTTTTATTAATGTATTATTATTGAAATTTGTAGCCTTGCC
127669795 A
1 A
127669796 TTGGTCAGTG
Statistics
Matches: 49, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
48 49 1.00
ACGTcount: A:0.28, C:0.08, G:0.12, T:0.52
Consensus pattern (48 bp):
AGAATTTTTTTTTATTAATGTATTATTATTGAAATTTGTAGCCTTGCC
Found at i:127681603 original size:33 final size:35
Alignment explanation
Indices: 127681551--127681617 Score: 93
Period size: 34 Copynumber: 2.0 Consensus size: 35
127681541 TGATTCACTG
*
127681551 TTTTAATATATATTTTTTAT-ATTTAAAATTTTTC
1 TTTTAATATATATGTTTTATAATTTAAAATTTTTC
* *
127681585 TTTTTATATA-ATGTTTTATAATTTAAACTTTTT
1 TTTTAATATATATGTTTTATAATTTAAAATTTTT
127681618 AAATTTAATA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
33 8 0.28
34 21 0.72
ACGTcount: A:0.31, C:0.03, G:0.01, T:0.64
Consensus pattern (35 bp):
TTTTAATATATATGTTTTATAATTTAAAATTTTTC
Found at i:127684888 original size:1 final size:1
Alignment explanation
Indices: 127684848--127684872 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
127684838 GGGGGTTAGG
127684848 TTTTTTTTTTTTTTTTTTTTTTTTT
1 TTTTTTTTTTTTTTTTTTTTTTTTT
127684873 GGGTTAGGTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:0.00, C:0.00, G:0.00, T:1.00
Consensus pattern (1 bp):
T
Found at i:127685885 original size:75 final size:74
Alignment explanation
Indices: 127685691--127686874 Score: 742
Period size: 75 Copynumber: 15.0 Consensus size: 74
127685681 TTTTTTTTTG
* * **
127685691 TTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTAAGGCTCAACTCATTTCTCGCAATATG
1 TTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
*
127685756 AGTTGA--A
66 AGTTGATTT
* * **
127685763 TTTTGAAAACAGAAATTGAAATTACCTCCGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATG
1 TTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
127685828 AGTTGATTT
66 AGTTGATTT
* * **
127685837 TTTTGAAAGACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATAT
1 TTTTGAAA-ACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATAT
127685902 GAGTTGATTTT
65 GAGTTGA-TTT
* * * * * *
127685913 TTTTTACAACAGAAATTGAAATTACCTCAGCGTATCCTGAGGCTTC-ACTCACCTCTCACAATAT
1 TTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGC-TCAACTCACCTCTCGCAATAT
127685977 GAGTTGATTT
65 GAGTTGATTT
* * * * * *
127685987 TTTTGAAAGGCAGAAATTGAAAA-ACGAAATTGAAAATACCTCGGCGTGTGA-G-TCAAGGCTCA
1 TTTTGAAA-ACAGAAATTGAAAATAC----CT---CA-GCGT-GTC-T-TGAGGCTCAA--CTC-
* *
127686049 ACTCACTATTCGCAATATGAGCTGATTT
51 A--C-CT-CTCGCAATATGAGTTGATTT
* * ** * *
127686077 TTTTGAAACACAGAAATTAAAGAACAGAAATGGAAAACACTTCAGCGTCTTGAGGTTCAACTCAC
1 TTTTGAAA-ACAGAAATT---G---A-AAAT----ACCTCAGC-GTGTCTTGAGGCTCAACTCAC
*
127686142 CTCTCGCAATATGAGCTGATTT
53 CTCTCGCAATATGAGTTGATTT
* * *
127686164 TTTTAAAAAACAGGAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCTCTCGCAATAT
1 TTTT-GAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATAT
127686229 GAGTTGA--T
65 GAGTTGATTT
** * * ** * * * ** *
127686237 TTTTG-AAACTTAACTTGAAAAGCAGATTTTGAAAATGCCTCGATATGTGACTCAAGGCTCAACT
1 TTTTGAAAACAGAAATTG-AAA--ATA-CCT---CA-GCGT-G-TCT-TGAGGC-T----CAACT
127686301 CACCTCTCGCAATATGAGTTGA--T
50 CACCTCTCGCAATATGAGTTGATTT
* * * * *
127686324 TTTTGAAAATATAAATTGAAAAAAAAAATACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTC
1 TTTTGAAAACAGAAATTG------AAAATACCTCAGCGTGT-CT-TGAGGCTCAACTCACCTCTC
*
127686389 GTAATATGAGTTGATTTT
58 GCAATATGAGTTGA-TTT
*
127686407 TTTTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAAC-TGAGGCTCAACTCACCTCTCGCAA
1 TTTTGAAA-ACAGAAATTGAAAATACCTCAGC--GTG-TCTTGAGGCTCAACTCACCTCTCGCAA
* *
127686471 TATAAGTTGGTTTTTTT
62 TATGAGTT-G---ATTT
* **
127686488 TTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATG
1 TTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
*
127686553 AGTTGA--A
66 AGTTGATTT
* **
127686560 TTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCAT-TCGCAATAT
1 TTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACC-TCTCGCAATAT
*
127686624 GAGCTGATTT
65 GAGTTGATTT
* * ** * * *
127686634 TTTTGAAACACAGAAATTAAAGAACAGAAATGGAAAACACCTCAGCGTCTTGAGGTTCAACTCAT
1 TTTTGAAA-ACAGAAATT---G---A-AAAT----ACCTCAGC-GTGTCTTGAGGCTCAACTCAC
*
127686699 CTCTCGCAATATGAGCTGATTT
53 CTCTCGCAATATGAGTTGATTT
* * *
127686721 TTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCGCTCGCAATAC
1 TTTTG-AAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATAT
127686786 GAGTTGATTTTTT
65 GAGTTGA---TTT
* * * *
127686799 TTTTGACAACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGTTCAACTCACCTCTCGCAATATG
1 TTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
*
127686864 AGTTGAATT
66 AGTTGATTT
127686873 TT
1 TT
127686875 GAAATAAAAC
Statistics
Matches: 872, Mismatches: 143, Indels: 192
0.72 0.12 0.16
Matches are distributed among these distances:
71 8 0.01
72 128 0.15
73 6 0.01
74 33 0.04
75 200 0.23
76 19 0.02
77 61 0.07
78 84 0.10
79 3 0.00
80 60 0.07
81 17 0.02
82 11 0.01
83 11 0.01
84 12 0.01
85 13 0.01
86 8 0.01
87 115 0.13
88 18 0.02
89 3 0.00
90 34 0.04
91 3 0.00
92 6 0.01
93 7 0.01
94 7 0.01
96 1 0.00
97 3 0.00
102 1 0.00
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (74 bp):
TTTTGAAAACAGAAATTGAAAATACCTCAGCGTGTCTTGAGGCTCAACTCACCTCTCGCAATATG
AGTTGATTT
Found at i:127686159 original size:87 final size:87
Alignment explanation
Indices: 127685936--127686186 Score: 249
Period size: 87 Copynumber: 2.8 Consensus size: 87
127685926 AATTGAAATT
* * * * **
127685936 ACCTCAGCGTATCCTGAGGCTTC-ACTCACCTCTCACAATATGAGTTGATTTTTTTGAAAGGCAG
1 ACCTCAGCGTCT-GTGAGG-TTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAAACAG
* *
127686000 AAATTGAAAAACGAAATTGAAAAT
64 AAATTGAAAAACGAAATGGAAAAC
* * * * * *
127686024 ACCTCGGCGTGTGAGTCAAGGCTCAACTCA-CTATTCGCAATATGAGCTGATTTTTTTGAAACAC
1 ACCTCAGCGTCT--GT-GAGGTTCAACTCACCT-CTCGCAATATGAGCTGATTTTTTTGAAAAAC
127686088 AGAAATT-AAAGAACAGAAATGGAAAAC
62 AGAAATTGAAA-AAC-GAAATGGAAAAC
* * *
127686115 ACTTCAGCGTCT-TGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTAAAAAACAGGA
1 ACCTCAGCGTCTGTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAAACAGAA
127686179 ATTGAAAA
66 ATTGAAAA
127686187 TACCTCAACG
Statistics
Matches: 133, Mismatches: 22, Indels: 17
0.77 0.13 0.10
Matches are distributed among these distances:
87 46 0.35
88 16 0.12
89 8 0.06
90 44 0.33
91 19 0.14
ACGTcount: A:0.35, C:0.19, G:0.18, T:0.27
Consensus pattern (87 bp):
ACCTCAGCGTCTGTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTGAAAAACAGAA
ATTGAAAAACGAAATGGAAAAC
Found at i:127686467 original size:78 final size:76
Alignment explanation
Indices: 127686291--127686874 Score: 450
Period size: 78 Copynumber: 7.5 Consensus size: 76
127686281 ATGTGACTCA
* *
127686291 AGGCTCAACTCACCTCTCGCAATATGAGTTGA--TTTTTGAAAATATAAATTGAAAAAAAAAATA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTG------AAAATA
**
127686354 CCTCAGTGTGTGATCTG
60 CCTCAGCATGTGATCTG
* *
127686371 AAGCTCAACTCACCTCTCGTAATATGAGTTGATTTTTTTTGAAAGACAGAAATTGAAAATACCTC
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA-TTTTTTTGAAA-ACAGAAATTGAAAATACCTC
*
127686436 AGCATGTGAACTG
64 AGCATGTGATCTG
* *
127686449 AGGCTCAACTCACCTCTCGCAATATAAGTTGGTTTTTTTTTTTGAAAACAGAAATTGAAAATACC
1 AGGCTCAACTCACCTCTCGCAATATGAGTT-G---ATTTTTTTGAAAACAGAAATTGAAAATACC
*
127686514 TCA--ACGTG-TCTTG
62 TCAGCATGTGATC-TG
** * *
127686527 AGGCTCAACTCATTTCTCGCAATATGAGTTGA--ATTTTGAAAACAGAAATTGAAATTACCTCAG
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAG
*
127686590 C--GTG-TCCCG
66 CATGTGAT-CTG
*
127686599 AGGCTCAACTCACCAT-TCGCAATATGAGCTGATTTTTTTGAAACACAGAAATTAAAGAACAGAA
1 AGGCTCAACTCACC-TCTCGCAATATGAGTTGATTTTTTTGAAA-ACAGAAATT---G---A-AA
*** * *
127686663 ATGGAAAACA-CCTCAGCG-TCTTG
57 AT--ACCTCAGCAT--GTGATC-TG
* * *
127686686 AGGTTCAACTCATCTCTCGCAATATGAGCTGATTTTTTTGAAAAACAGAAATTGAAAATACCTCA
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTG-AAAACAGAAATTGAAAATACCTCA
*
127686751 --ACGTG-TCTTG
65 GCATGTGATC-TG
* * * *
127686761 AGGCTCAACTCACCGCTCGCAATACGAGTTGATTTTTTTTTTGACAACAGAAATTGAAATTACCT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGA---TTTTTTTGAAAACAGAAATTGAAAATACCT
127686826 CAGC--GTG-TCCTG
63 CAGCATGTGAT-CTG
* *
127686838 AGGTTCAACTCACCTCTCGCAATATGAGTTGAATTTT
1 AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTT
127686875 GAAATAAAAC
Statistics
Matches: 417, Mismatches: 49, Indels: 82
0.76 0.09 0.15
Matches are distributed among these distances:
72 60 0.14
73 2 0.00
74 12 0.03
75 43 0.10
77 59 0.14
78 93 0.22
79 1 0.00
80 55 0.13
81 13 0.03
82 3 0.01
83 10 0.02
84 12 0.03
86 2 0.00
87 49 0.12
88 3 0.01
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.30
Consensus pattern (76 bp):
AGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAAACAGAAATTGAAAATACCTCAG
CATGTGATCTG
Found at i:127686654 original size:557 final size:544
Alignment explanation
Indices: 127685650--127686878 Score: 1532
Period size: 557 Copynumber: 2.2 Consensus size: 544
127685640 GTGATCTGAA
* *** ***
127685650 GCTCAACTCACCTCTCACAATATGAGTTGATTTTTTTTTTGTTTTGAAAACAGAAATTGAAAATA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAACTTAACTTGAAAACAGAAATTGAAAATA
* * **
127685715 CCTCAACGTGTCTTAAGGCTCAACTCATTTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATT
66 CCTCAACGTGACTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATT
* * *
127685780 GAAATTACCTCCGCGTGTCCCGAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA
131 GAAAATACCTCAGCGTGTCCCGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA
** *
127685845 GACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAT
196 GACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAATATAAGTTGAT
* * *
127685910 TTTTTTTTACAACAGAAATTGAAATTACCTCAGCGTATCCTGAGGCTTCACTCACCTCTCACAAT
261 TTTTTTTTAAAACAGAAATTGAAAATACCTCAACGTATCCTGAGGCTTCACTCACCTCTCACAAT
* * * **
127685975 ATGAGTTGATTTTTTTGAAAGGCAGAAATTGAAAAACGAAATTGAAAATACCTCGGCGTGTGAGT
326 ATGAGTTGA-TATTTTGAAAGACAGAAATT-----A-GAAATT----ATACCTCAGCGTGT-ACC
*
127686040 CAAGGCTCAACTCACTATTCGCAATATGAGCTGATTTTTTTGAAACACAGAAATTAAAGAACAGA
379 CAAGGCTCAACTCACCATTCGCAATATGAGCTGATTTTTTTGAAACACAGAAATTAAAGAACAGA
*
127686105 AATGGAAAACACTTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTAA
444 AATGGAAAACACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTAA
*
127686170 AAAACAGGAATTGAAAATACCTCAACGTGTCTTGAG
509 AAAACAGAAATTGAAAATACCTCAACGTGTCTTGAG
**
127686206 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAACTTAACTTGAAAAGCAGATTTTGAAA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTT--AACTTAACTTGAAAA-CAGAAATTGAAA
* * * * *
127686271 ATGCCTCGATATGTGACTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTGAAAATAT
63 ATACCTC-A-ACGTGACTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAG
* * * *
127686336 AAATTGAAAAAAAAAATACCTCAGTGTGTGATCTGAAGCTCAACTCACCTCTCGTAATATGAGTT
126 AAATTG------AAAATACCTCAGCGTGT--CCCGAAGCTCAACTCACCTCTCGCAATATGAGTT
*
127686401 GATTTTTTTTGAAAGACAGAAATTGAAAATACCTCAGCATGTGAAC-TGAGGCTCAACTCACCTC
183 GA-TTTTTTTGAAAGACAAAAATTGAAAATACCTCAGCATGT---CTTGAGGCTCAACTCACCTC
* * *
127686465 TCGCAATATAAGTTGGTTTTTTTTTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGG
244 TCGCAATATAAGTT-G-ATTTTTTTTT-AAAACAGAAATTGAAAATACCTCAACGTATCCTGAGG
** *
127686530 C-TCAACTCATTTCTCGCAATATGAGTTGA-ATTTTGAAA-ACAGAAATT-GAAA-T-TACCTCA
306 CTTC-ACTCACCTCTCACAATATGAGTTGATATTTTGAAAGACAGAAATTAGAAATTATACCTCA
*
127686589 GCGTGT-CCCGAGGCTCAACTCACCATTCGCAATATGAGCTGATTTTTTTGAAACACAGAAATTA
370 GCGTGTACCCAAGGCTCAACTCACCATTCGCAATATGAGCTGATTTTTTTGAAACACAGAAATTA
*
127686653 AAGAACAGAAATGGAAAACACCTCAGCGTCTTGAGGTTCAACTCATCTCTCGCAATATGAGCTGA
435 AAGAACAGAAATGGAAAACACCTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGA
*
127686718 TTTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAG
500 TTTTTTTAAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAG
* * * * *
127686763 GCTCAACTCACCGCTCGCAATACGAGTTGATTTTT---TT--TTTGACAACAGAAATTGAAATTA
1 GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAACTTAACTTGAAAACAGAAATTGAAAATA
* * * *
127686823 CCTCAGCGTGTC-CTGAGGTTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAA
66 CCTCAACGTGACTC-AAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAA
127686879 TAAAACATCA
Statistics
Matches: 588, Mismatches: 63, Indels: 53
0.84 0.09 0.08
Matches are distributed among these distances:
546 1 0.00
547 43 0.07
548 1 0.00
549 15 0.03
550 6 0.01
552 2 0.00
556 34 0.06
557 193 0.33
558 9 0.02
559 28 0.05
560 1 0.00
561 53 0.09
564 1 0.00
565 4 0.01
567 14 0.02
569 32 0.05
570 38 0.06
572 37 0.06
573 10 0.02
574 11 0.02
575 55 0.09
ACGTcount: A:0.33, C:0.20, G:0.17, T:0.31
Consensus pattern (544 bp):
GCTCAACTCACCTCTCGCAATATGAGTTGATTTTTAACTTAACTTGAAAACAGAAATTGAAAATA
CCTCAACGTGACTCAAGGCTCAACTCACCTCTCGCAATATGAGTTGAATTTTGAAAACAGAAATT
GAAAATACCTCAGCGTGTCCCGAAGCTCAACTCACCTCTCGCAATATGAGTTGATTTTTTTGAAA
GACAAAAATTGAAAATACCTCAGCATGTCTTGAGGCTCAACTCACCTCTCGCAATATAAGTTGAT
TTTTTTTTAAAACAGAAATTGAAAATACCTCAACGTATCCTGAGGCTTCACTCACCTCTCACAAT
ATGAGTTGATATTTTGAAAGACAGAAATTAGAAATTATACCTCAGCGTGTACCCAAGGCTCAACT
CACCATTCGCAATATGAGCTGATTTTTTTGAAACACAGAAATTAAAGAACAGAAATGGAAAACAC
CTCAGCGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGCTGATTTTTTTAAAAAACAGAAATT
GAAAATACCTCAACGTGTCTTGAG
Found at i:127686768 original size:162 final size:161
Alignment explanation
Indices: 127686495--127686799 Score: 434
Period size: 162 Copynumber: 1.9 Consensus size: 161
127686485 TTTTTTTGAA
* * * * *
127686495 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCATTTCTCGCAATATGAGTTGAA
1 AACAGAAATGGAAAACACCTCAACGCGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGCTGAA
* * * *
127686560 TTTTGAAAACAGAAATTGAAATTACCTCAGCGTGTCCCGAGGCTCAACTCACCATTCGCAATATG
66 TTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCCCGAGGCTCAACTCACCACTCGCAATACG
127686625 AGCTGATTTTTTTGAAACACAGAAATTAAAG
131 AGCTGATTTTTTTGAAACACAGAAATTAAAG
*
127686656 AACAGAAATGGAAAACACCTC-A-GCGTCTTGAGGTTCAACTCATCTCTCGCAATATGAGCTGAT
1 AACAGAAATGGAAAACACCTCAACGCGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGCTGA-
* ** *
127686719 TTTTTTGAAAAACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCGCTCGCAAT
65 -ATTTTG-AAAACAGAAATTGAAAATACCTCAACGTGTCCCGAGGCTCAACTCACCACTCGCAAT
*
127686784 ACGAGTTGATTTTTTT
128 ACGAGCTGATTTTTTT
127686800 TTTGACAACA
Statistics
Matches: 126, Mismatches: 15, Indels: 5
0.86 0.10 0.03
Matches are distributed among these distances:
159 36 0.29
160 1 0.01
161 24 0.19
162 65 0.52
ACGTcount: A:0.34, C:0.21, G:0.17, T:0.29
Consensus pattern (161 bp):
AACAGAAATGGAAAACACCTCAACGCGTCTTGAGGCTCAACTCATCTCTCGCAATATGAGCTGAA
TTTTGAAAACAGAAATTGAAAATACCTCAACGTGTCCCGAGGCTCAACTCACCACTCGCAATACG
AGCTGATTTTTTTGAAACACAGAAATTAAAG
Found at i:127686814 original size:77 final size:77
Alignment explanation
Indices: 127686656--127686874 Score: 277
Period size: 77 Copynumber: 2.9 Consensus size: 77
127686646 GAAATTAAAG
* * * * *
127686656 AACAGAAATGGAAAACACCTC-A-GCGTCTTGAGGTTCAACTCATCTCTCGCAATATGAGCTGA-
1 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGTTGAT
127686718 -TTTTTTTGAAA
66 TTTTTTTTGAAA
* * *
127686729 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGCTCAACTCACCGCTCGCAATACGAGTTGAT
1 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGTTGA-
*
127686794 TTTTTTTTTG-AC
65 TTTTTTTTTGAAA
* * * *
127686806 AACAGAAATTGAAATTACCTCAGCGTGTCCTGAGGTTCAACTCACCTCTCGCAATATGAGTTGAA
1 AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGTTGAT
127686871 TTTT
66 TTTT
127686875 GAAATAAAAC
Statistics
Matches: 125, Mismatches: 16, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
73 19 0.15
74 1 0.01
75 34 0.27
76 4 0.03
77 59 0.47
78 8 0.06
ACGTcount: A:0.31, C:0.21, G:0.17, T:0.30
Consensus pattern (77 bp):
AACAGAAATTGAAAATACCTCAACGTGTCTTGAGGTTCAACTCACCTCTCGCAATATGAGTTGAT
TTTTTTTTGAAA
Found at i:127697113 original size:35 final size:35
Alignment explanation
Indices: 127697049--127697116 Score: 86
Period size: 35 Copynumber: 1.9 Consensus size: 35
127697039 ACACAATATG
* *
127697049 GTATTTAAAATATATATATATATGTATATATAATA
1 GTATTTAAAATATATACATATATGAATATATAATA
127697084 GTATTTAAGAATATATACATA-A-GAAATATATAA
1 GTATTTAA-AATATATACATATATG-AATATATAA
127697117 CTAATGGCAT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
34 1 0.03
35 17 0.59
36 11 0.38
ACGTcount: A:0.51, C:0.01, G:0.07, T:0.40
Consensus pattern (35 bp):
GTATTTAAAATATATACATATATGAATATATAATA
Found at i:127697152 original size:39 final size:37
Alignment explanation
Indices: 127697055--127697152 Score: 99
Period size: 39 Copynumber: 2.6 Consensus size: 37
127697045 TATGGTATTT
* * * *
127697055 AAAATATATATAT-ATATGTATATATAATAGTATTTA
1 AAAATATATACATAATATATATATATAATAGCATTAA
* * * *
127697091 AGAATATATACATAAGAAATATATAACTAATGGCATTAA
1 AAAATATATACATAATATATATAT-A-TAATAGCATTAA
127697130 AAAATATATACATAATATATATA
1 AAAATATATACATAATATATATA
127697153 AAATACCTAA
Statistics
Matches: 48, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
36 11 0.23
37 7 0.15
38 1 0.02
39 29 0.60
ACGTcount: A:0.54, C:0.04, G:0.06, T:0.36
Consensus pattern (37 bp):
AAAATATATACATAATATATATATATAATAGCATTAA
Found at i:127699236 original size:12 final size:12
Alignment explanation
Indices: 127699219--127699244 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
127699209 AATTTTTAAT
127699219 GTTTACATTATA
1 GTTTACATTATA
127699231 GTTTACATTATA
1 GTTTACATTATA
127699243 GT
1 GT
127699245 ATTATATATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.08, G:0.12, T:0.50
Consensus pattern (12 bp):
GTTTACATTATA
Found at i:127705500 original size:2 final size:2
Alignment explanation
Indices: 127705493--127705521 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
127705483 GGTTTTTCTA
127705493 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
127705522 CATTTAATGT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:127706042 original size:18 final size:18
Alignment explanation
Indices: 127706019--127706070 Score: 56
Period size: 18 Copynumber: 3.0 Consensus size: 18
127706009 GTTCAAGGTG
127706019 TAATTAATTTAAAATT-TT
1 TAATTAA-TTAAAATTATT
*
127706037 TAATTAATTAAATTTATT
1 TAATTAATTAAAATTATT
*
127706055 TAA-TAA-AAAAATTATT
1 TAATTAATTAAAATTATT
127706071 CTCGTCTCCT
Statistics
Matches: 30, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
16 8 0.27
17 10 0.33
18 12 0.40
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
TAATTAATTAAAATTATT
Found at i:127706454 original size:16 final size:16
Alignment explanation
Indices: 127706435--127706470 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
127706425 AACCTAACCC
*
127706435 AAAAAAAAA-ACAAAG
1 AAAAAAAAAGAAAAAG
127706450 AAAAAAAAAGAAAAAG
1 AAAAAAAAAGAAAAAG
127706466 AAAAA
1 AAAAA
127706471 CCTACCAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
15 9 0.47
16 10 0.53
ACGTcount: A:0.89, C:0.03, G:0.08, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAGAAAAAG
Found at i:127706482 original size:13 final size:15
Alignment explanation
Indices: 127706466--127706498 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
127706456 AAAGAAAAAG
127706466 AAAAACCT-A-CCAA
1 AAAAACCTAACCCAA
127706479 AAAAACCTAACCCAA
1 AAAAACCTAACCCAA
127706494 AAAAA
1 AAAAA
127706499 AAAGAAGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 8 0.44
14 1 0.06
15 9 0.50
ACGTcount: A:0.67, C:0.27, G:0.00, T:0.06
Consensus pattern (15 bp):
AAAAACCTAACCCAA
Found at i:127706538 original size:57 final size:57
Alignment explanation
Indices: 127706420--127706544 Score: 139
Period size: 57 Copynumber: 2.2 Consensus size: 57
127706410 AGCCCCCCAA
* ***
127706420 AAAAAAACCTAACCCAAAAAAAAAACAAAGAAAAAAAAAGAAAAAGAAAAACCTACC
1 AAAAAAACCTAACCCAAAAAAAAAACAAAGAAAAAAAAAGAAAAACAAAAAAAGACC
* * *
127706477 AAAAAAACCTAACCCAAAAAAAAAA-GAAGAAAAAAGAAA-AACCTAACAAAAAAAGA-T
1 AAAAAAACCTAACCCAAAAAAAAAACAAAGAAAAAA-AAAGAA--AAACAAAAAAAGACC
127706534 AAAAAAACCTA
1 AAAAAAACCTA
127706545 GCCACCTAAC
Statistics
Matches: 58, Mismatches: 7, Indels: 6
0.82 0.10 0.08
Matches are distributed among these distances:
56 11 0.19
57 39 0.67
58 8 0.14
ACGTcount: A:0.74, C:0.16, G:0.06, T:0.05
Consensus pattern (57 bp):
AAAAAAACCTAACCCAAAAAAAAAACAAAGAAAAAAAAAGAAAAACAAAAAAAGACC
Found at i:127715198 original size:37 final size:38
Alignment explanation
Indices: 127715157--127715232 Score: 100
Period size: 39 Copynumber: 2.0 Consensus size: 38
127715147 TGATAACTCA
*
127715157 AAGCAAA-AGAAATCAGAAGATTCATCTGATATCTTAG
1 AAGCAAACAAAAATCAGAAGATTCATCTGATATCTTAG
* * *
127715194 AAGCAAAGCAAAAATTAGAAGATTCTTGTGATATCTTAG
1 AAGCAAA-CAAAAATCAGAAGATTCATCTGATATCTTAG
127715233 GGCCACATAG
Statistics
Matches: 33, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
37 7 0.21
39 26 0.79
ACGTcount: A:0.45, C:0.12, G:0.17, T:0.26
Consensus pattern (38 bp):
AAGCAAACAAAAATCAGAAGATTCATCTGATATCTTAG
Found at i:127727796 original size:18 final size:18
Alignment explanation
Indices: 127727773--127727808 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
127727763 AAAGCCTTCG
*
127727773 AAGTATGGTCACCGTATT
1 AAGTATGGCCACCGTATT
*
127727791 AAGTATGGCCACTGTATT
1 AAGTATGGCCACCGTATT
127727809 GGGGTTTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.28, C:0.17, G:0.22, T:0.33
Consensus pattern (18 bp):
AAGTATGGCCACCGTATT
Found at i:127744291 original size:16 final size:18
Alignment explanation
Indices: 127744258--127744291 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
127744248 AATTTATTTG
127744258 ATCAAATAAGATGAACAA
1 ATCAAATAAGATGAACAA
127744276 ATCAAAT-AGA-GAACAA
1 ATCAAATAAGATGAACAA
127744292 GTGGCCTCGC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 6 0.38
17 3 0.19
18 7 0.44
ACGTcount: A:0.62, C:0.12, G:0.12, T:0.15
Consensus pattern (18 bp):
ATCAAATAAGATGAACAA
Found at i:127753550 original size:31 final size:31
Alignment explanation
Indices: 127753484--127753547 Score: 87
Period size: 31 Copynumber: 2.1 Consensus size: 31
127753474 GTAGACTTGT
**
127753484 AAATTTACAATTTGATCACTCAATTATTAGT
1 AAATTTACAATTTGATCACTCAATTATTAAA
127753515 AAATTTACAATTT-ACTCACTCAATT-TTAAA
1 AAATTTACAATTTGA-TCACTCAATTATTAAA
127753545 AAA
1 AAA
127753548 ATTATTAGAT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
30 7 0.23
31 23 0.77
ACGTcount: A:0.44, C:0.14, G:0.03, T:0.39
Consensus pattern (31 bp):
AAATTTACAATTTGATCACTCAATTATTAAA
Found at i:127755284 original size:2 final size:2
Alignment explanation
Indices: 127755277--127755310 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
127755267 TGTAGGGCTA
127755277 AT AT 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 AT AT
127755311 GTTTATTTTG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:127755853 original size:261 final size:250
Alignment explanation
Indices: 127755380--127755868 Score: 701
Period size: 261 Copynumber: 1.9 Consensus size: 250
127755370 TAAAGGATAT
* * * *
127755380 ATGAATATATGTATATGATGGTAGCTTGTTAAATGGCATATGTATCATTTGAATGGCAAATTTTG
1 ATGAAGATATGTATATGATGGTAGCTTCTTAAATGGCATATGTATAATTTGAATGGAAAATTTTG
* * *
127755445 GTAGATTTATAATCAGTTTGAACTTGGTTATATATGGCATATATTTAGGAGATATCATATGATCT
66 GTAGATTTATAATCAGCTTAAACTTGGTTATATATGGCATATATTTAGAAGATATCATATGATCT
*
127755510 TGTTATGCTTTGTTTGGTTGATATTGAGCCTATAATGTAATTGGCAAATGTTTAATATGCACAAG
131 TGTTATGCTTTGTTTGGTTGATATTGAGCCTATAATGTAATTGGCAAATGTTCAATATGCACAAG
*
127755575 TTTATTATCATGTTGTGGTATATATATATATATGTCGGTTTCTAAGTGAGCATGA
196 TTTATTATCATGTTGTGGTATACATATATATATGTCGGTTTCTAAGTGAGCATGA
* *
127755630 ATGAAGATGTGTATGTGATGGTAGCTTCTTAAATGGCATATGTATAATTTGAATGGAAAATTTTG
1 ATGAAGATATGTATATGATGGTAGCTTCTTAAATGGCATATGTATAATTTGAATGGAAAATTTTG
* * * * *
127755695 GTAGATTTATAAT-TGCTTAAACTTGGTTATATGTGGCATGTATTTAGAAGATGTCATATTATCT
66 GTAGATTTATAATCAGCTTAAACTTGGTTATATATGGCATATATTTAGAAGATATCATATGATCT
*
127755759 TGTTATGCTTTGTTTGGTTGGGAACTTAGTTGATATTGAGCCTATAATGTAATTGGCAGATGTTC
131 TGTTATGCTTTG--T--TT--G------GTTGATATTGAGCCTATAATGTAATTGGCAAATGTTC
*
127755824 AATATGCACAAGTTTATTATCATGTTGTGGTGTACATATATATAT
184 AATATGCACAAGTTTATTATCATGTTGTGGTATACATATATATAT
127755869 ATGTGTGTGT
Statistics
Matches: 209, Mismatches: 18, Indels: 13
0.87 0.08 0.05
Matches are distributed among these distances:
249 55 0.26
250 72 0.34
251 1 0.00
253 2 0.01
255 1 0.00
261 78 0.37
ACGTcount: A:0.29, C:0.08, G:0.21, T:0.42
Consensus pattern (250 bp):
ATGAAGATATGTATATGATGGTAGCTTCTTAAATGGCATATGTATAATTTGAATGGAAAATTTTG
GTAGATTTATAATCAGCTTAAACTTGGTTATATATGGCATATATTTAGAAGATATCATATGATCT
TGTTATGCTTTGTTTGGTTGATATTGAGCCTATAATGTAATTGGCAAATGTTCAATATGCACAAG
TTTATTATCATGTTGTGGTATACATATATATATGTCGGTTTCTAAGTGAGCATGA
Found at i:127758455 original size:24 final size:25
Alignment explanation
Indices: 127758406--127758455 Score: 59
Period size: 24 Copynumber: 2.0 Consensus size: 25
127758396 GTCCTTGATC
* *
127758406 TTGACATTTTTTTTCAATTTAGTCT
1 TTGACATTTTTTTCCAATTTAATCT
127758431 TTGA-ATTTTTTTCCACA-TTAATCT
1 TTGACATTTTTTTCCA-ATTTAATCT
127758455 T
1 T
127758456 AAAATTGGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
24 17 0.77
25 5 0.23
ACGTcount: A:0.22, C:0.14, G:0.06, T:0.58
Consensus pattern (25 bp):
TTGACATTTTTTTCCAATTTAATCT
Found at i:127760374 original size:28 final size:27
Alignment explanation
Indices: 127760341--127760397 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 27
127760331 AATCGTTGTA
* *
127760341 ATTTTTGGATATTTGAAATTTAATTTTTT
1 ATTTTTCGA-ATTTAAAATTT-ATTTTTT
127760370 ATTTTTCGAATTTAAAATTTATTTTTT
1 ATTTTTCGAATTTAAAATTTATTTTTT
127760397 A
1 A
127760398 ATAATATTAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 8 0.31
28 10 0.38
29 8 0.31
ACGTcount: A:0.30, C:0.02, G:0.07, T:0.61
Consensus pattern (27 bp):
ATTTTTCGAATTTAAAATTTATTTTTT
Found at i:127760500 original size:22 final size:23
Alignment explanation
Indices: 127760472--127760515 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
127760462 ACTTAAAAAT
127760472 TTAAATTC-AAAAAATAATAAAG
1 TTAAATTCTAAAAAATAATAAAG
*
127760494 TTAAATTCTTAAAAATAATAAA
1 TTAAATTCTAAAAAATAATAAA
127760516 ATAAAATAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
22 8 0.40
23 12 0.60
ACGTcount: A:0.61, C:0.05, G:0.02, T:0.32
Consensus pattern (23 bp):
TTAAATTCTAAAAAATAATAAAG
Found at i:127760520 original size:22 final size:22
Alignment explanation
Indices: 127760473--127760520 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 22
127760463 CTTAAAAATT
*
127760473 TAAATTCAAAAAATAATAAAGT
1 TAAATTCAAAAAATAATAAAGA
*
127760495 TAAATTCTTAAAAATAATAAA-A
1 TAAATTC-AAAAAATAATAAAGA
127760517 TAAA
1 TAAA
127760521 ATAAAATTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
22 11 0.48
23 12 0.52
ACGTcount: A:0.65, C:0.04, G:0.02, T:0.29
Consensus pattern (22 bp):
TAAATTCAAAAAATAATAAAGA
Found at i:127760543 original size:27 final size:28
Alignment explanation
Indices: 127760487--127760542 Score: 71
Period size: 28 Copynumber: 2.1 Consensus size: 28
127760477 TTCAAAAAAT
* *
127760487 AATAAAGTTAAATTCTTAAAAATAATAA
1 AATAAAATAAAATTCTTAAAAATAATAA
*
127760515 AATAAAATAAAATT-TTAAATAT-ATAA
1 AATAAAATAAAATTCTTAAAAATAATAA
127760541 AA
1 AA
127760543 AGCGTAAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
26 6 0.24
27 7 0.28
28 12 0.48
ACGTcount: A:0.64, C:0.02, G:0.02, T:0.32
Consensus pattern (28 bp):
AATAAAATAAAATTCTTAAAAATAATAA
Found at i:127766990 original size:18 final size:18
Alignment explanation
Indices: 127766967--127767004 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
127766957 TAATGTGTTT
*
127766967 TAAATTGCATAATATATA
1 TAAATTACATAATATATA
*
127766985 TAAATTATATAATATATA
1 TAAATTACATAATATATA
127767003 TA
1 TA
127767005 CAAATGATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.53, C:0.03, G:0.03, T:0.42
Consensus pattern (18 bp):
TAAATTACATAATATATA
Found at i:127767003 original size:20 final size:20
Alignment explanation
Indices: 127766975--127767020 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
127766965 TTTAAATTGC
*
127766975 ATAATATATAT--AAATTAT
1 ATAATATATATACAAATGAT
127766993 ATAATATATATACAAATGAT
1 ATAATATATATACAAATGAT
127767013 ATAATATA
1 ATAATATA
127767021 AAGTATTATA
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 11 0.44
20 14 0.56
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (20 bp):
ATAATATATATACAAATGAT
Found at i:127767724 original size:7 final size:7
Alignment explanation
Indices: 127767714--127767740 Score: 54
Period size: 7 Copynumber: 3.9 Consensus size: 7
127767704 TGTCATCTTT
127767714 TTTTTTC
1 TTTTTTC
127767721 TTTTTTC
1 TTTTTTC
127767728 TTTTTTC
1 TTTTTTC
127767735 TTTTTT
1 TTTTTT
127767741 TTAACTTTGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 20 1.00
ACGTcount: A:0.00, C:0.11, G:0.00, T:0.89
Consensus pattern (7 bp):
TTTTTTC
Found at i:127767729 original size:17 final size:17
Alignment explanation
Indices: 127767709--127767742 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
127767699 TTATCTGTCA
127767709 TCTTTTTTTTTCTTTTT
1 TCTTTTTTTTTCTTTTT
127767726 TCTTTTTTCTTT-TTTTT
1 TCTTTTTT-TTTCTTTTT
127767743 AACTTTGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 13 0.81
18 3 0.19
ACGTcount: A:0.00, C:0.12, G:0.00, T:0.88
Consensus pattern (17 bp):
TCTTTTTTTTTCTTTTT
Found at i:127769416 original size:22 final size:20
Alignment explanation
Indices: 127769382--127769424 Score: 50
Period size: 22 Copynumber: 2.0 Consensus size: 20
127769372 TAAATCCAAA
127769382 ATTAAATAAATTCATAATTAAC
1 ATTAAATAAATTC-T-ATTAAC
**
127769404 ATTAAATTTATTCTATTAAC
1 ATTAAATAAATTCTATTAAC
127769424 A
1 A
127769425 AAATAACAAG
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
20 7 0.37
21 1 0.05
22 11 0.58
ACGTcount: A:0.49, C:0.09, G:0.00, T:0.42
Consensus pattern (20 bp):
ATTAAATAAATTCTATTAAC
Found at i:127770666 original size:15 final size:15
Alignment explanation
Indices: 127770646--127770674 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
127770636 TACTTTAAAG
127770646 ACTTAATTCAAAGTA
1 ACTTAATTCAAAGTA
127770661 ACTTAATTCAAAGT
1 ACTTAATTCAAAGT
127770675 TTAGAAACCA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.45, C:0.14, G:0.07, T:0.34
Consensus pattern (15 bp):
ACTTAATTCAAAGTA
Found at i:127772231 original size:16 final size:16
Alignment explanation
Indices: 127772210--127772240 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
127772200 ATAAAAAAAA
127772210 TTCCATGAAGACAAAG
1 TTCCATGAAGACAAAG
*
127772226 TTCCATGCAGACAAA
1 TTCCATGAAGACAAA
127772241 AGTAATTTTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.42, C:0.23, G:0.16, T:0.19
Consensus pattern (16 bp):
TTCCATGAAGACAAAG
Found at i:127777907 original size:9 final size:9
Alignment explanation
Indices: 127777890--127777942 Score: 54
Period size: 9 Copynumber: 5.9 Consensus size: 9
127777880 TATAGTTTTT
127777890 ATTTAAAAA
1 ATTTAAAAA
*
127777899 ATTTTAAAA
1 ATTTAAAAA
127777908 ATTTAAAAA
1 ATTTAAAAA
*
127777917 A-TAAAAATA
1 ATTTAAAA-A
*
127777926 ATTAAAAAA
1 ATTTAAAAA
*
127777935 ATGTAAAA
1 ATTTAAAA
127777943 TATTAAATCA
Statistics
Matches: 37, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
8 5 0.14
9 26 0.70
10 6 0.16
ACGTcount: A:0.68, C:0.00, G:0.02, T:0.30
Consensus pattern (9 bp):
ATTTAAAAA
Found at i:127777947 original size:18 final size:17
Alignment explanation
Indices: 127777892--127777949 Score: 55
Period size: 18 Copynumber: 3.3 Consensus size: 17
127777882 TAGTTTTTAT
*
127777892 TTAAAAAATTTTAAAA-A
1 TTAAAAAA-ATTAAAATA
* *
127777909 TTTAAAAAATAAAAATAA
1 TTAAAAAAATTAAAAT-A
127777927 TTAAAAAAATGTAAAATA
1 TTAAAAAAAT-TAAAATA
127777945 TTAAA
1 TTAAA
127777950 TCAAATTATA
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
16 5 0.15
17 7 0.21
18 16 0.48
19 5 0.15
ACGTcount: A:0.67, C:0.00, G:0.02, T:0.31
Consensus pattern (17 bp):
TTAAAAAAATTAAAATA
Found at i:127778085 original size:43 final size:39
Alignment explanation
Indices: 127778010--127778090 Score: 92
Period size: 41 Copynumber: 2.0 Consensus size: 39
127778000 ATTAAAATAA
127778010 ATAATATTTATTTTTTTATAATAATTAAATAATATTTATG
1 ATAATATTTATTTTTTTATAATAATTAAATAAT-TTTATG
* *
127778050 ATAATA-TTATTTATCTTTATGATAATTTTATATAATTTTAT
1 ATAATATTTATTT-T-TTTATAATAA--TTAAATAATTTTAT
127778091 TTTCTTACCT
Statistics
Matches: 35, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
39 6 0.17
40 7 0.20
41 9 0.26
42 5 0.14
43 8 0.23
ACGTcount: A:0.40, C:0.01, G:0.02, T:0.57
Consensus pattern (39 bp):
ATAATATTTATTTTTTTATAATAATTAAATAATTTTATG
Found at i:127778089 original size:21 final size:22
Alignment explanation
Indices: 127778027--127778090 Score: 69
Period size: 21 Copynumber: 3.0 Consensus size: 22
127778017 TTATTTTTTT
*
127778027 ATAATAATTAAATAATATTTATG
1 ATAAT-ATTATATAATATTTATG
* *
127778050 ATAATATTAT-TTATCTTTATG
1 ATAATATTATATAATATTTATG
*
127778071 ATAATTTTATATAAT-TTTAT
1 ATAATATTATATAATATTTAT
127778091 TTTCTTACCT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
21 23 0.66
22 7 0.20
23 5 0.14
ACGTcount: A:0.42, C:0.02, G:0.03, T:0.53
Consensus pattern (22 bp):
ATAATATTATATAATATTTATG
Found at i:127778190 original size:11 final size:10
Alignment explanation
Indices: 127778173--127778198 Score: 52
Period size: 10 Copynumber: 2.6 Consensus size: 10
127778163 AATATATATT
127778173 TAAAAAAAAA
1 TAAAAAAAAA
127778183 TAAAAAAAAA
1 TAAAAAAAAA
127778193 TAAAAA
1 TAAAAA
127778199 CATACTCTCC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 16 1.00
ACGTcount: A:0.88, C:0.00, G:0.00, T:0.12
Consensus pattern (10 bp):
TAAAAAAAAA
Found at i:127788488 original size:16 final size:16
Alignment explanation
Indices: 127788464--127788503 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
127788454 CATATACATT
127788464 CAAACATACACACAAA
1 CAAACATACACACAAA
* *
127788480 CATACATACACACTAA
1 CAAACATACACACAAA
127788496 CAAACATA
1 CAAACATA
127788504 AAGTATACAT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 21 1.00
ACGTcount: A:0.57, C:0.30, G:0.00, T:0.12
Consensus pattern (16 bp):
CAAACATACACACAAA
Found at i:127790285 original size:29 final size:29
Alignment explanation
Indices: 127790229--127790286 Score: 73
Period size: 31 Copynumber: 2.0 Consensus size: 29
127790219 TATATTTTTT
*
127790229 CTTTAAAAATATAAAAATTTAATTTCTATC
1 CTTTAAAAATATAAAAATATAA-TTCTATC
*
127790259 CTTTAAAATTTATAAAAATATAA-TCTAT
1 CTTTAAAA-ATATAAAAATATAATTCTAT
127790287 GAAAATAAAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
29 5 0.20
30 8 0.32
31 12 0.48
ACGTcount: A:0.48, C:0.09, G:0.00, T:0.43
Consensus pattern (29 bp):
CTTTAAAAATATAAAAATATAATTCTATC
Found at i:127790924 original size:8 final size:7
Alignment explanation
Indices: 127790898--127790922 Score: 50
Period size: 7 Copynumber: 3.6 Consensus size: 7
127790888 CTTAACAAAT
127790898 AAAACGA
1 AAAACGA
127790905 AAAACGA
1 AAAACGA
127790912 AAAACGA
1 AAAACGA
127790919 AAAA
1 AAAA
127790923 ACTTCTTATA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 18 1.00
ACGTcount: A:0.76, C:0.12, G:0.12, T:0.00
Consensus pattern (7 bp):
AAAACGA
Found at i:127795096 original size:14 final size:13
Alignment explanation
Indices: 127795077--127795110 Score: 59
Period size: 13 Copynumber: 2.5 Consensus size: 13
127795067 TAAAAAGTTC
127795077 ATAAAAAATAAAAA
1 ATAAAAAAT-AAAA
127795091 ATAAAAAATAAAA
1 ATAAAAAATAAAA
127795104 ATAAAAA
1 ATAAAAA
127795111 TTAGGTTCAA
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
13 11 0.55
14 9 0.45
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (13 bp):
ATAAAAAATAAAA
Found at i:127795111 original size:6 final size:7
Alignment explanation
Indices: 127795077--127795110 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
127795067 TAAAAAGTTC
127795077 ATAAAAA
1 ATAAAAA
127795084 ATAAAAA
1 ATAAAAA
127795091 ATAAAAA
1 ATAAAAA
127795098 AT-AAAA
1 ATAAAAA
127795104 ATAAAAA
1 ATAAAAA
127795111 TTAGGTTCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
6 6 0.23
7 20 0.77
ACGTcount: A:0.85, C:0.00, G:0.00, T:0.15
Consensus pattern (7 bp):
ATAAAAA
Found at i:127796774 original size:32 final size:32
Alignment explanation
Indices: 127796737--127796802 Score: 132
Period size: 32 Copynumber: 2.1 Consensus size: 32
127796727 AATTTGGTAT
127796737 CTGTACTTTTATTTTGTTTATCATTATGATAC
1 CTGTACTTTTATTTTGTTTATCATTATGATAC
127796769 CTGTACTTTTATTTTGTTTATCATTATGATAC
1 CTGTACTTTTATTTTGTTTATCATTATGATAC
127796801 CT
1 CT
127796803 ATTTGTAACG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.21, C:0.14, G:0.09, T:0.56
Consensus pattern (32 bp):
CTGTACTTTTATTTTGTTTATCATTATGATAC
Found at i:127798505 original size:65 final size:65
Alignment explanation
Indices: 127798429--127798559 Score: 253
Period size: 65 Copynumber: 2.0 Consensus size: 65
127798419 ACTATTATTA
127798429 GATTATGATTTTGATCAAGCTTCTCAATAAAAGCTTAAAATTAAACCGAAAAGACCGAGTAACTT
1 GATTATGATTTTGATCAAGCTTCTCAATAAAAGCTTAAAATTAAACCGAAAAGACCGAGTAACTT
*
127798494 GATTATGATTTTGATCAAGCTTCTCAGTAAAAGCTTAAAATTAAACCGAAAAGACCGAGTAACTT
1 GATTATGATTTTGATCAAGCTTCTCAATAAAAGCTTAAAATTAAACCGAAAAGACCGAGTAACTT
127798559 G
1 G
127798560 CAACTCGCTA
Statistics
Matches: 65, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 65 1.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.29
Consensus pattern (65 bp):
GATTATGATTTTGATCAAGCTTCTCAATAAAAGCTTAAAATTAAACCGAAAAGACCGAGTAACTT
Found at i:127802408 original size:12 final size:12
Alignment explanation
Indices: 127802391--127802415 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
127802381 ACGTGGAGGC
127802391 CCCTACTAGAAT
1 CCCTACTAGAAT
127802403 CCCTACTAGAAT
1 CCCTACTAGAAT
127802415 C
1 C
127802416 AGATTGTATT
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:0.32, C:0.36, G:0.08, T:0.24
Consensus pattern (12 bp):
CCCTACTAGAAT
Found at i:127804608 original size:32 final size:32
Alignment explanation
Indices: 127804567--127804664 Score: 196
Period size: 32 Copynumber: 3.1 Consensus size: 32
127804557 TTATGACTAT
127804567 GATTGACTTGGATTTTCTAGAAATGAAATATC
1 GATTGACTTGGATTTTCTAGAAATGAAATATC
127804599 GATTGACTTGGATTTTCTAGAAATGAAATATC
1 GATTGACTTGGATTTTCTAGAAATGAAATATC
127804631 GATTGACTTGGATTTTCTAGAAATGAAATATC
1 GATTGACTTGGATTTTCTAGAAATGAAATATC
127804663 GA
1 GA
127804665 AAACATAATT
Statistics
Matches: 66, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
32 66 1.00
ACGTcount: A:0.35, C:0.09, G:0.19, T:0.37
Consensus pattern (32 bp):
GATTGACTTGGATTTTCTAGAAATGAAATATC
Found at i:127805259 original size:22 final size:21
Alignment explanation
Indices: 127805218--127805268 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 21
127805208 TCCTTTTATT
* *
127805218 TTTTAAAATGTAAAATGTAAAA
1 TTTTAAAA-ATAAAAAGTAAAA
*
127805240 TTGTTAAAAATAAAAAGTAAAG
1 TT-TTAAAAATAAAAAGTAAAA
127805262 TTTTAAA
1 TTTTAAA
127805269 TTTTTGAAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 3
0.81 0.10 0.10
Matches are distributed among these distances:
21 5 0.20
22 14 0.56
23 6 0.24
ACGTcount: A:0.55, C:0.00, G:0.10, T:0.35
Consensus pattern (21 bp):
TTTTAAAAATAAAAAGTAAAA
Found at i:127807628 original size:15 final size:15
Alignment explanation
Indices: 127807608--127807638 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
127807598 ACCAAAATAG
127807608 AAAACTTCTATTTTA
1 AAAACTTCTATTTTA
*
127807623 AAAACTTTTATTTTA
1 AAAACTTCTATTTTA
127807638 A
1 A
127807639 GGGGTCGGCT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.42, C:0.10, G:0.00, T:0.48
Consensus pattern (15 bp):
AAAACTTCTATTTTA
Found at i:127809490 original size:82 final size:81
Alignment explanation
Indices: 127809337--127809494 Score: 203
Period size: 82 Copynumber: 1.9 Consensus size: 81
127809327 CTTAGGGCCC
** * * *
127809337 CAAAATGAAAAAAATTCAATCTTGTCCTTTTATAAATAAATAACCTATAAATTAATATATAGTAC
1 CAAAATGAAAAAAATTCAATCTAATCCTCTTATAAATAAAGAAACTATAAATTAATATATAG-AC
127809402 AATTGCACTTTGGTACT
65 AATTGCACTTTGGTACT
* *
127809419 CAAAATGAAAAAATTTCAAT-TCAATCCTCTTATAAATAAAGAAATTATAAATTAATATATA-AC
1 CAAAATGAAAAAAATTCAATCT-AATCCTCTTATAAATAAAGAAACTATAAATTAATATATAGAC
127809482 AAAGTTGCACTTT
65 -AA-TTGCACTTT
127809495 AGCTCTCTTA
Statistics
Matches: 66, Mismatches: 7, Indels: 6
0.84 0.09 0.08
Matches are distributed among these distances:
80 2 0.03
81 3 0.05
82 61 0.92
ACGTcount: A:0.47, C:0.13, G:0.06, T:0.34
Consensus pattern (81 bp):
CAAAATGAAAAAAATTCAATCTAATCCTCTTATAAATAAAGAAACTATAAATTAATATATAGACA
ATTGCACTTTGGTACT
Found at i:127810096 original size:33 final size:35
Alignment explanation
Indices: 127810058--127810127 Score: 90
Period size: 33 Copynumber: 2.1 Consensus size: 35
127810048 AATATTTATT
* * * *
127810058 AAATTAAGTATTAAAATTTTTTG-AATT-AATTAA
1 AAATTAAGGATAAAAATTATATGAAATTAAATTAA
127810091 AAATTAAGGATAAAAATTATATGAAATTAAATTAA
1 AAATTAAGGATAAAAATTATATGAAATTAAATTAA
127810126 AA
1 AA
127810128 TAATTAAATT
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
33 19 0.61
34 4 0.13
35 8 0.26
ACGTcount: A:0.56, C:0.00, G:0.07, T:0.37
Consensus pattern (35 bp):
AAATTAAGGATAAAAATTATATGAAATTAAATTAA
Found at i:127810206 original size:26 final size:27
Alignment explanation
Indices: 127810175--127810228 Score: 74
Period size: 27 Copynumber: 2.0 Consensus size: 27
127810165 GATTGAAACC
*
127810175 TAAAAAGAATAAAT-AAAATAGTTGAA
1 TAAAAAAAATAAATCAAAATAGTTGAA
**
127810201 TAAAAAAAATCCATCAAAATAGTTGAA
1 TAAAAAAAATAAATCAAAATAGTTGAA
127810228 T
1 T
127810229 CATGTCACTA
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
26 11 0.46
27 13 0.54
ACGTcount: A:0.61, C:0.06, G:0.09, T:0.24
Consensus pattern (27 bp):
TAAAAAAAATAAATCAAAATAGTTGAA
Found at i:127819091 original size:30 final size:29
Alignment explanation
Indices: 127819022--127819093 Score: 74
Period size: 30 Copynumber: 2.4 Consensus size: 29
127819012 AATTGAATAA
* *
127819022 AAATTAAAATTTTATGTATATTTTAAACT
1 AAATTAAAATTTTATGTATATATTAAACC
* *
127819051 ACAATCAAAATTTCATATGTATA-ATTATACC
1 A-AATTAAAATTT--TATGTATATATTAAACC
127819082 AAATTAAAATTT
1 AAATTAAAATTT
127819094 ATTTATCTAA
Statistics
Matches: 35, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
29 1 0.03
30 20 0.57
31 6 0.17
32 8 0.23
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.42
Consensus pattern (29 bp):
AAATTAAAATTTTATGTATATATTAAACC
Found at i:127825080 original size:23 final size:23
Alignment explanation
Indices: 127825035--127825080 Score: 58
Period size: 23 Copynumber: 2.0 Consensus size: 23
127825025 TAATTAATTT
*
127825035 TAAATATATATAAAATTATAAAA
1 TAAATATATATAAAAGTATAAAA
*
127825058 TAAATATATGT-AAAGTATGAAAA
1 TAAATATATATAAAAGTAT-AAAA
127825081 CGTGTGGGGG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 6 0.30
23 14 0.70
ACGTcount: A:0.61, C:0.00, G:0.07, T:0.33
Consensus pattern (23 bp):
TAAATATATATAAAAGTATAAAA
Found at i:127825728 original size:8 final size:8
Alignment explanation
Indices: 127825717--127825759 Score: 50
Period size: 8 Copynumber: 5.0 Consensus size: 8
127825707 TTTTTTTGAA
127825717 TTTTAATT
1 TTTTAATT
*
127825725 TTTTTATT
1 TTTTAATT
127825733 TTTTGAATAT
1 TTTT-AAT-T
127825743 TTTGTAATT
1 TTT-TAATT
127825752 TTTTAATT
1 TTTTAATT
127825760 ATTTGTTGAC
Statistics
Matches: 30, Mismatches: 2, Indels: 6
0.79 0.05 0.16
Matches are distributed among these distances:
8 16 0.53
9 6 0.20
10 7 0.23
11 1 0.03
ACGTcount: A:0.23, C:0.00, G:0.05, T:0.72
Consensus pattern (8 bp):
TTTTAATT
Found at i:127836703 original size:27 final size:27
Alignment explanation
Indices: 127836666--127836718 Score: 79
Period size: 27 Copynumber: 2.0 Consensus size: 27
127836656 TTATACTTTC
* *
127836666 AAAATAGTTTTAATAATTTTTTTAAAA
1 AAAATAATTTTAATAATTGTTTTAAAA
*
127836693 AAAATAATTTTTATAATTGTTTTAAA
1 AAAATAATTTTAATAATTGTTTTAAA
127836719 TTTTAAAATT
Statistics
Matches: 23, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.47, C:0.00, G:0.04, T:0.49
Consensus pattern (27 bp):
AAAATAATTTTAATAATTGTTTTAAAA
Found at i:127839975 original size:23 final size:23
Alignment explanation
Indices: 127839943--127839986 Score: 63
Period size: 24 Copynumber: 1.9 Consensus size: 23
127839933 GCTCTTTTTC
*
127839943 TTAAGTAATT-TTTTTTAGAAAA
1 TTAAGTAATTCTTTTTGAGAAAA
127839965 TTAAGATAATTCTTTTTGAGAA
1 TTAAG-TAATTCTTTTTGAGAA
127839987 GTCTATATTC
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
22 5 0.26
23 5 0.26
24 9 0.47
ACGTcount: A:0.39, C:0.02, G:0.11, T:0.48
Consensus pattern (23 bp):
TTAAGTAATTCTTTTTGAGAAAA
Found at i:127842697 original size:22 final size:22
Alignment explanation
Indices: 127842650--127842697 Score: 53
Period size: 22 Copynumber: 2.2 Consensus size: 22
127842640 ATATTTTAAT
* * *
127842650 TTTATTCTTTAAAAATTATATT
1 TTTATTATTTAAAAATTACATA
127842672 TTTATTATTGTAAAAATTACA-A
1 TTTATTATT-TAAAAATTACATA
127842694 TTTA
1 TTTA
127842698 ATTTCGATCC
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
22 12 0.55
23 10 0.45
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (22 bp):
TTTATTATTTAAAAATTACATA
Found at i:127844828 original size:12 final size:12
Alignment explanation
Indices: 127844813--127844844 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
127844803 ATCACCACCC
127844813 CCACCACCGCCG
1 CCACCACCGCCG
*
127844825 CCACCGCCGCCG
1 CCACCACCGCCG
127844837 CCACCACC
1 CCACCACC
127844845 ACCCATTGTT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.16, C:0.69, G:0.16, T:0.00
Consensus pattern (12 bp):
CCACCACCGCCG
Found at i:127848085 original size:4 final size:4
Alignment explanation
Indices: 127848076--127848104 Score: 58
Period size: 4 Copynumber: 7.2 Consensus size: 4
127848066 TATTAAAATG
127848076 TAAA TAAA TAAA TAAA TAAA TAAA TAAA T
1 TAAA TAAA TAAA TAAA TAAA TAAA TAAA T
127848105 TTTTAATAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 25 1.00
ACGTcount: A:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (4 bp):
TAAA
Found at i:127857826 original size:19 final size:20
Alignment explanation
Indices: 127857802--127857841 Score: 64
Period size: 20 Copynumber: 2.0 Consensus size: 20
127857792 AGACTGAGAG
127857802 AGTGAAACAG-ATCCAAGAA
1 AGTGAAACAGAATCCAAGAA
*
127857821 AGTGAATCAGAATCCAAGAA
1 AGTGAAACAGAATCCAAGAA
127857841 A
1 A
127857842 ATAGAGAGGG
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 9 0.47
20 10 0.53
ACGTcount: A:0.53, C:0.15, G:0.20, T:0.12
Consensus pattern (20 bp):
AGTGAAACAGAATCCAAGAA
Found at i:127858800 original size:22 final size:23
Alignment explanation
Indices: 127858775--127858825 Score: 72
Period size: 22 Copynumber: 2.3 Consensus size: 23
127858765 TAAACCCTCA
127858775 AAATCTT-TTAAAAATTATT-ATT
1 AAATCTTCTTAAAAATT-TTAATT
127858797 AAAT-TTCTTAAAAATTTTAATT
1 AAATCTTCTTAAAAATTTTAATT
127858819 AAATCTT
1 AAATCTT
127858826 AAAATTTAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
21 4 0.15
22 20 0.77
23 2 0.08
ACGTcount: A:0.45, C:0.06, G:0.00, T:0.49
Consensus pattern (23 bp):
AAATCTTCTTAAAAATTTTAATT
Found at i:127859289 original size:60 final size:60
Alignment explanation
Indices: 127859194--127859319 Score: 200
Period size: 60 Copynumber: 2.1 Consensus size: 60
127859184 TTTTACTTTT
* * *
127859194 GTGTCGAATGAGTTTTAGTTTGATTAGTATGAATATTATTGTCAATGCAAGAGGATGTGA
1 GTGTCGAATGAGTCTTAGTTTGATTAGTATAAATATTATTGCCAATGCAAGAGGATGTGA
* *
127859254 GTGTCGATTGAGTCTTAGTTTGATTAGTATAAATATTATTGCCAATGTAAGAGGATGTGA
1 GTGTCGAATGAGTCTTAGTTTGATTAGTATAAATATTATTGCCAATGCAAGAGGATGTGA
127859314 GT-TCGA
1 GTGTCGA
127859320 GTGCATTGAA
Statistics
Matches: 61, Mismatches: 5, Indels: 1
0.91 0.07 0.01
Matches are distributed among these distances:
59 4 0.07
60 57 0.93
ACGTcount: A:0.29, C:0.06, G:0.26, T:0.38
Consensus pattern (60 bp):
GTGTCGAATGAGTCTTAGTTTGATTAGTATAAATATTATTGCCAATGCAAGAGGATGTGA
Done.