Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold2504
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: 1293507
ACGTcount: A:0.25, C:0.14, G:0.14, T:0.25
Warning! 302448 characters in sequence are not A, C, G, or T
File 6 of 7
Found at i:1111581 original size:26 final size:26
Alignment explanation
Indices: 1111545--1111607 Score: 126
Period size: 26 Copynumber: 2.4 Consensus size: 26
1111535 GCATTCTCTG
1111545 TATCGATACATTGTATCGATACACTT
1 TATCGATACATTGTATCGATACACTT
1111571 TATCGATACATTGTATCGATACACTT
1 TATCGATACATTGTATCGATACACTT
1111597 TATCGATACAT
1 TATCGATACAT
1111608 GGAAATTATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 37 1.00
ACGTcount: A:0.32, C:0.19, G:0.11, T:0.38
Consensus pattern (26 bp):
TATCGATACATTGTATCGATACACTT
Found at i:1114205 original size:13 final size:13
Alignment explanation
Indices: 1114187--1114211 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1114177 ACATACAAGA
1114187 TGTATCGATACAC
1 TGTATCGATACAC
1114200 TGTATCGATACA
1 TGTATCGATACA
1114212 TGACCAAATG
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:0.32, C:0.20, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAC
Found at i:1114228 original size:33 final size:32
Alignment explanation
Indices: 1114168--1114231 Score: 94
Period size: 33 Copynumber: 2.0 Consensus size: 32
1114158 CTTAACTGTT
1114168 TGTATCAATACATACAAGATGTATCGATACAC
1 TGTATCAATACATACAAGATGTATCGATACAC
*
1114200 TGTATCGATACATGACCAA-ATGTATCGATACA
1 TGTATCAATACAT-A-CAAGATGTATCGATACA
1114232 TTGGCTTGTA
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
32 12 0.41
33 14 0.48
34 3 0.10
ACGTcount: A:0.39, C:0.19, G:0.14, T:0.28
Consensus pattern (32 bp):
TGTATCAATACATACAAGATGTATCGATACAC
Found at i:1120963 original size:16 final size:15
Alignment explanation
Indices: 1120925--1120963 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
1120915 AATTTAATTT
*
1120925 TTATTTCAATTAAAA
1 TTATTTTAATTAAAA
1120940 TATATTTTAATTTAAAA
1 T-TATTTTAA-TTAAAA
1120957 TTATTTT
1 TTATTTT
1120964 GAAATTAAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
15 1 0.05
16 13 0.62
17 7 0.33
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (15 bp):
TTATTTTAATTAAAA
Found at i:1120971 original size:17 final size:17
Alignment explanation
Indices: 1120932--1120972 Score: 57
Period size: 17 Copynumber: 2.4 Consensus size: 17
1120922 TTTTTATTTC
1120932 AATTAAAATATATTTTA
1 AATTAAAATATATTTTA
*
1120949 ATTTAAAAT-TATTTTGA
1 AATTAAAATATATTTT-A
1120966 AATTAAA
1 AATTAAA
1120973 TTTAGCTTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
16 6 0.29
17 15 0.71
ACGTcount: A:0.51, C:0.00, G:0.02, T:0.46
Consensus pattern (17 bp):
AATTAAAATATATTTTA
Found at i:1121495 original size:20 final size:18
Alignment explanation
Indices: 1121460--1121503 Score: 52
Period size: 20 Copynumber: 2.3 Consensus size: 18
1121450 AAAATTAAAA
1121460 TAAATATTTATAATTAAATT
1 TAAATATTTATAATT--ATT
* *
1121480 TAAATATTTTTTATTATT
1 TAAATATTTATAATTATT
1121498 TAAATA
1 TAAATA
1121504 ATAATTTAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
18 9 0.41
20 13 0.59
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (18 bp):
TAAATATTTATAATTATT
Found at i:1122091 original size:18 final size:18
Alignment explanation
Indices: 1122043--1122091 Score: 55
Period size: 18 Copynumber: 2.7 Consensus size: 18
1122033 ATAAATACGA
*
1122043 AGAAATAATAATAATTTT
1 AGAAATTATAATAATTTT
* *
1122061 ATAAATTAAAATAATTTT
1 AGAAATTATAATAATTTT
1122079 -GAAATTATTAATA
1 AGAAATTA-TAATA
1122092 TTTACATAAT
Statistics
Matches: 25, Mismatches: 5, Indels: 2
0.78 0.16 0.06
Matches are distributed among these distances:
17 6 0.24
18 19 0.76
ACGTcount: A:0.55, C:0.00, G:0.04, T:0.41
Consensus pattern (18 bp):
AGAAATTATAATAATTTT
Found at i:1123080 original size:34 final size:36
Alignment explanation
Indices: 1123012--1123087 Score: 95
Period size: 36 Copynumber: 2.1 Consensus size: 36
1123002 AATTTATTTC
* *
1123012 AAATATTTTGAGAAAGATAATTAAACATTGATAAA-A
1 AAATATTTGGAGAAAGATAA-TAAACATTAATAAATA
1123048 AAATATTTGGAGAAA-AGTAA-AAACATTAATAAATA
1 AAATATTTGGAGAAAGA-TAATAAACATTAATAAATA
1123083 AAATA
1 AAATA
1123088 AAACAAAATA
Statistics
Matches: 36, Mismatches: 2, Indels: 5
0.84 0.05 0.12
Matches are distributed among these distances:
34 12 0.33
35 7 0.19
36 17 0.47
ACGTcount: A:0.59, C:0.03, G:0.11, T:0.28
Consensus pattern (36 bp):
AAATATTTGGAGAAAGATAATAAACATTAATAAATA
Found at i:1124006 original size:8 final size:8
Alignment explanation
Indices: 1123984--1124013 Score: 51
Period size: 8 Copynumber: 3.6 Consensus size: 8
1123974 CAAAAAAAAT
1123984 AAAAATCA
1 AAAAATCA
1123992 AAGAAATCA
1 AA-AAATCA
1124001 AAAAATCA
1 AAAAATCA
1124009 AAAAA
1 AAAAA
1124014 AAAATGATCA
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
8 13 0.62
9 8 0.38
ACGTcount: A:0.77, C:0.10, G:0.03, T:0.10
Consensus pattern (8 bp):
AAAAATCA
Found at i:1125901 original size:79 final size:78
Alignment explanation
Indices: 1125532--1125986 Score: 357
Period size: 78 Copynumber: 5.8 Consensus size: 78
1125522 AAATTTCTAT
* *** * * **
1125532 AATCGAGGATACTCCAATTTCGTTATTTCTGAAGGGATACTCCAACCCTAGTTCT-TTTCCAAAA
1 AATCGAAGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTT-TATTTCCAAAA
* *
1125596 CACTAACTTTTCAC
65 CACCAATTTTTCAC
* * * * **
1125610 AATCGGAGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCAGTTTTTTTTTAAAAC
1 AATCGAAGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTATTTCCAAAAC
* * *
1125675 ACTAACTTTACAC
66 ACCAATTTTTCAC
** * * * * * * *
1125688 AATCGGGGAT-TTCCAACCTCGTTAATTT-CGAAGGGATACTCCAACTCTGGCCTTATTTCTAAA
1 AATCGAAGATACTCCAACCCCGTT-ATTTCCGAGGGGATACTCCAACCCCGG-TTTATTTCCAAA
* *
1125751 ACATCGA-TTTTCTAC
64 ACACCAATTTTTC-AC
* * ** *
1125766 AATC-AGGGATACTCTAACCCCGTTATTTTAGA-GGGATACTCCAACCCCGTTTTTATTTCCAAA
1 AATCGA-AGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCG-GTTTATTTCCAAA
*
1125829 ACACCGATTTTTCAC
64 ACACCAATTTTTCAC
* * * *
1125844 CATCGAAGATACCCCAACCCCATTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAA
1 AATCGAAGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGG-TTTATTTCCAAAA
* *
1125909 CATCAATTTTCCAC
65 CACCAATTTTTCAC
* * * * * *
1125923 AATCG-AGAAAACTCCAACTCCGTTATTTCTGAGAGGATACTCCAACCTCGGTTTGTTTCCAAAA
1 AATCGAAG-ATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTATTTCCAAAA
1125987 TATCGATTTT
Statistics
Matches: 305, Mismatches: 59, Indels: 26
0.78 0.15 0.07
Matches are distributed among these distances:
77 34 0.11
78 173 0.57
79 98 0.32
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (78 bp):
AATCGAAGATACTCCAACCCCGTTATTTCCGAGGGGATACTCCAACCCCGGTTTATTTCCAAAAC
ACCAATTTTTCAC
Found at i:1125925 original size:157 final size:153
Alignment explanation
Indices: 1125554--1126003 Score: 444
Period size: 157 Copynumber: 2.9 Consensus size: 153
1125544 TCCAATTTCG
* * *
1125554 TTATTTCTGAAGGGATACTCCAACCCTAG-TTCT-TTTCCAAAACA-CTAACTTTT-CACAATCG
1 TTATTTCCGAAGGGATACTCCAACCCTGGCTT-TATTTCTAAAACATC-AA-TTTTCCACAATCG
* **
1125615 GAGATACTCCAACCCCGTTATTTTCGAGGGGATACTCCAACCCCAGTTTTTTTT-TAAAACACTA
63 G-GATACTCCAACCCCGTTATTTT-GA-GGGATACTCCAACCCC-GTTTTTTTTCCAAAACACCG
* * ** ** * *
1125679 ACTTTACACAATCGGGGATTTCCAACCTCG
124 ATTTTACACCATCGAAGATCCCCAACCCCA
* * * *
1125709 TTAATTT-CGAAGGGATACTCCAACTCTGGCCTTATTTCTAAAACATCGATTTTCTACAATCAGG
1 TT-ATTTCCGAAGGGATACTCCAACCCTGGCTTTATTTCTAAAACATCAATTTTCCACAATC-GG
*
1125773 GATACTCTAACCCCGTTATTTTAGAGGGATACTCCAACCCCGTTTTTATTTCCAAAACACCGATT
64 GATACTCCAACCCCGTTATTTT-GAGGGATACTCCAACCCCGTTTTT-TTTCCAAAACACCGATT
*
1125838 TTTCACCATCGAAGATACCCCAACCCCA
127 TTACACCATCGAAGAT-CCCCAACCCCA
* * *
1125866 TTATTTCCGAGGGGATACTCCAACCCCGGCTTTATTTCTAAAACATCAATTTTCCACAATCGAGA
1 TTATTTCCGAAGGGATACTCCAACCCTGGCTTTATTTCTAAAACATCAATTTTCCACAATCG-GG
* * * * * * *
1125931 AAACTCCAACTCCGTTATTTCTGAGAGGATACTCCAACCTCGGTTTGTTTCCAAAATATCGATTT
65 ATACTCCAACCCCGTTATTT-TGAG-GGATACTCCAACCCCGTTTTTTTTCCAAAACACCGATTT
*
1125996 TCCACCAT
128 TACACCAT
1126004 TGGGGATGCT
Statistics
Matches: 245, Mismatches: 37, Indels: 24
0.80 0.12 0.08
Matches are distributed among these distances:
154 6 0.02
155 45 0.18
156 71 0.29
157 104 0.42
158 19 0.08
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (153 bp):
TTATTTCCGAAGGGATACTCCAACCCTGGCTTTATTTCTAAAACATCAATTTTCCACAATCGGGA
TACTCCAACCCCGTTATTTTGAGGGATACTCCAACCCCGTTTTTTTTCCAAAACACCGATTTTAC
ACCATCGAAGATCCCCAACCCCA
Found at i:1130245 original size:79 final size:78
Alignment explanation
Indices: 1129939--1130245 Score: 319
Period size: 79 Copynumber: 3.9 Consensus size: 78
1129929 GGGGATAACG
* * ** * * *
1129939 ACGGGGCTGGAGTATCCCCAATTATGGAAAATTGGTGTTCTAGAAATAAAATCGGGGTTGGAGTA
1 ACGGGGTTGGAGTATCCCCGATTAT-GAAAATTGAAGTTTTAGAAATAAAACCGAGGTTGGAGTA
* *
1130004 ACCCTTCAAAAATA
65 TCCCCTCAAAAATA
* * * * **
1130018 ACGGGGTTGGTGTATCCCCGATTGTGAAAAGTCGAAGCTTTAGAAATAAGGCCGAGGTTGGAGTA
1 ACGGGGTTGGAGTATCCCCGATTATGAAAA-TTGAAGTTTTAGAAATAAAACCGAGGTTGGAGTA
* * *
1130083 TCTCCACCAAAATA
65 TCCCCTCAAAAATA
* * ** *
1130097 ACGGGGTTGGAGTATCCCCGATTATGAGAAA-TCAATATTTTAGAAATAAAGGCAAGGTTGGAGT
1 ACGGGGTTGGAGTATCCCCGATTATGA-AAATTGAA-GTTTTAGAAATAAAACCGAGGTTGGAGT
1130161 ATCCCCTCAAAAATA
64 ATCCCCTCAAAAATA
* * * *
1130176 ATGGGATTGGAGTATCCCCGATTATGGAAAATTGAAGTTTTGGAAATAAAACCGGGGTTGGAGTA
1 ACGGGGTTGGAGTATCCCCGATTAT-GAAAATTGAAGTTTTAGAAATAAAACCGAGGTTGGAGTA
1130241 TCCCC
65 TCCCC
1130246 GAGATGAAAA
Statistics
Matches: 184, Mismatches: 39, Indels: 10
0.79 0.17 0.04
Matches are distributed among these distances:
78 7 0.04
79 169 0.92
80 8 0.04
ACGTcount: A:0.33, C:0.16, G:0.26, T:0.25
Consensus pattern (78 bp):
ACGGGGTTGGAGTATCCCCGATTATGAAAATTGAAGTTTTAGAAATAAAACCGAGGTTGGAGTAT
CCCCTCAAAAATA
Found at i:1132680 original size:13 final size:13
Alignment explanation
Indices: 1132634--1132662 Score: 58
Period size: 13 Copynumber: 2.2 Consensus size: 13
1132624 TAAACCTAAT
1132634 ATGTATCGATACA
1 ATGTATCGATACA
1132647 ATGTATCGATACA
1 ATGTATCGATACA
1132660 ATG
1 ATG
1132663 AACAATGTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.38, C:0.14, G:0.17, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:1133335 original size:45 final size:43
Alignment explanation
Indices: 1133286--1133408 Score: 121
Period size: 45 Copynumber: 2.9 Consensus size: 43
1133276 ATCCTACTCT
* *
1133286 AAAAATGGAAATGAAGTGCGTCTTGCTTTTTGAGGACAAAGGAA
1 AAAAATGGAAATGAA-TGCGTCCTGCTCTTTGAGGACAAAGGAA
* * *
1133330 AAAAA---AAA--AAAGCATCCTGCTCTTTGAGGACAAAAGGGA
1 AAAAATGGAAATGAATGCGTCCTGCTCTTTGAGGAC-AAAGGAA
* *
1133369 AAAGATGGAAATGAAATGTGTCCTGCTCTTTGAGGACAAA
1 AAAAATGGAAATG-AATGCGTCCTGCTCTTTGAGGACAAA
1133409 AGAGAAAAGG
Statistics
Matches: 63, Mismatches: 9, Indels: 14
0.73 0.10 0.16
Matches are distributed among these distances:
38 17 0.27
39 12 0.19
41 3 0.05
42 3 0.05
44 8 0.13
45 20 0.32
ACGTcount: A:0.41, C:0.12, G:0.24, T:0.22
Consensus pattern (43 bp):
AAAAATGGAAATGAATGCGTCCTGCTCTTTGAGGACAAAGGAA
Found at i:1133721 original size:62 final size:62
Alignment explanation
Indices: 1133413--1134552 Score: 1398
Period size: 62 Copynumber: 18.5 Consensus size: 62
1133403 GACAAAAGAG
* * * * * *
1133413 AAAAGGAAAAGGCGTCCTGCTATTTGAAGACTA-AAAAGTGCCACCAACTCGTGTGGGCTTCG
1 AAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTT-T
* * *
1133475 AAAAG-AAAAGGTGTCATGCTCTTTGAGGACTA-AAAGGTGCCACCAACTCGTGTGGGCTTT
1 AAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTT
* * * *
1133535 GAAAGGAAAAGGCGTCCTGCTCTTTGAGGACTA-AAGGGTGCCACCAACATGTGTGGGCTTT
1 AAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTT
* * * * * *
1133596 GAAAAGGAAAAA-CCATCCTACTCTTTGAGGACT-G-AAGGTGCCACTAGCTTGTGTAGGCTTT
1 -AAAA-GAAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTT
* * *
1133657 AAAAGAAAAAGGCGTCCTGTTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCGTT
1 AAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTT
* * * *
1133719 AAAAGGAAAAGGCATCCTGCTCTTTGAGGACTAG-AAGATGCCACCAACTTGTGTGAGCTTT
1 AAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTT
* * *
1133780 AAAAGGAAAAGGCGTCCTACTCTTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT
1 AAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTT
* * * * **
1133842 AAAAGGAAAAGGCATCCTGCTCTTTAAGGGCTAGAAAAATGCCACCAACTTGTGTGGGCTTT
1 AAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTT
* * * * *
1133904 AAAAGGAAAAGGTGTCCTGCTCCTTGAGGACCAGAAAAGTGCCACCAACTTGTGTGGGCTTT
1 AAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTT
* *
1133966 AAAAGGAAAAGGCGTCCTACTCTTTGAGGACTAG-AAGGTGCCACCAACTTGTGTGGGCTTT
1 AAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTT
* * *
1134027 AAAAGGAAAAAGGCGTCATGCTCCTTGAGGACTAGAAAAGTGCCACCAACTTGTGTGGGCTTT
1 AAAA-GAAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTT
*
1134090 AAAAGGAAAAA-GCGTCCTACTCTTTGAGGACTAG-AAGGTGCCACCAACTTGTGTGGGCTTT
1 AAAA-GAAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTT
* * * * *
1134151 AAAAGGAAAAGGCGTCCAGCTCTTTGAGGACTA-AAAAGTGCCACCAACTCGGGTGGGCTTT
1 AAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTT
*
1134212 GAAAAG-AAAAGGCGTCCTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTCT-TGTTGGCTTT
1 -AAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACT-TGTGTGGGCTTT
* * * *
1134273 GAAAAGAAAAAGGCATCCTGCTCTTTGAGGACTA-AGACGTGCCACCAACTTGTATGGGCTTT
1 -AAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTT
* * * *
1134335 GAAACGAAAAAGGTGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAATTTGTGTGGGCTTCG
1 -AAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTT-T
* **
1134399 AAAAG-AAAAGGCGTCTTGCTCTTTGAGGACTA-AAAGGTGCCACCAACTCATGTGGGCTTT
1 AAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTT
* * * * *
1134459 GAAACGAAAAAAGTGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACCTGTGTGGGCTTCG
1 -AAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTT-T
* * * *
1134523 AAAAGAAAAAGACGTCTTGTTTTTTGAGGA
1 AAAAGAAAAAGGCGTCCTGCTCTTTGAGGA
1134553 TTGAAGGTGA
Statistics
Matches: 941, Mismatches: 115, Indels: 43
0.86 0.10 0.04
Matches are distributed among these distances:
59 6 0.01
60 30 0.03
61 365 0.39
62 424 0.45
63 116 0.12
ACGTcount: A:0.30, C:0.20, G:0.26, T:0.24
Consensus pattern (62 bp):
AAAAGAAAAAGGCGTCCTGCTCTTTGAGGACTAGAAAGGTGCCACCAACTTGTGTGGGCTTT
Found at i:1148096 original size:79 final size:78
Alignment explanation
Indices: 1147914--1148134 Score: 223
Period size: 79 Copynumber: 2.8 Consensus size: 78
1147904 ACAACGGGGC
* * * * *
1147914 TAGAGTATCCCCGATTATGGAAAATCGGTGTTCTGGAAATAAAATCAGGGTTGGAGTATCCCCTC
1 TAGAGTATCCTCGATTATGAAAAATCGGCGTT-TTGAAATAAAATCGGGGTTGGAGTATCCCCTC
*
1147979 AGAAATAACAGGGT
65 AGAAATAACAGAGT
* * * **
1147993 TGGAGTATCCTAGATTAT-AGAAAATTGGCGTTTTGAAAATAAAATCGGGGTTGGAGTATCCTTT
1 TAGAGTATCCTCGATTATGA-AAAATCGGCGTTTTG-AAATAAAATCGGGGTTGGAGTATCCCCT
1148057 C-GAAAATAACAGAGT
64 CAG-AAATAACAGAGT
* * * **
1148072 TAGAGTATCATCGATTGTGAAAAATCGAAGC-TTTAGAAATAAGGTCGGGGTTGGAGTATCCCC
1 TAGAGTATCCTCGATTATGAAAAATCG--GCGTTTTGAAATAAAATCGGGGTTGGAGTATCCCC
1148135 CCGATTGTGA
Statistics
Matches: 115, Mismatches: 21, Indels: 12
0.78 0.14 0.08
Matches are distributed among these distances:
78 3 0.03
79 105 0.91
80 5 0.04
81 2 0.02
ACGTcount: A:0.33, C:0.14, G:0.25, T:0.28
Consensus pattern (78 bp):
TAGAGTATCCTCGATTATGAAAAATCGGCGTTTTGAAATAAAATCGGGGTTGGAGTATCCCCTCA
GAAATAACAGAGT
Found at i:1148263 original size:51 final size:50
Alignment explanation
Indices: 1148203--1148329 Score: 148
Period size: 50 Copynumber: 2.5 Consensus size: 50
1148193 AATAATGGGA
* *** *
1148203 TTGGAGTATCCCCGATTATGAAAAATTGTTGTTTT-GAAAATAAAACCAAGG
1 TTGGAGTATCCCCGA-GATGAAAAATCAATATTTTAG-AAATAAAACCAAGG
* * *
1148254 TTGGAGTATCCTCGAGATGAAAAATCAATATTTTAGAAATAAAGCCGAGG
1 TTGGAGTATCCCCGAGATGAAAAATCAATATTTTAGAAATAAAACCAAGG
*
1148304 TTGGAGTATCCCCGAGATAAAAAATC
1 TTGGAGTATCCCCGAGATGAAAAATC
1148330 TAGAAATTTA
Statistics
Matches: 65, Mismatches: 10, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
50 50 0.77
51 15 0.23
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.28
Consensus pattern (50 bp):
TTGGAGTATCCCCGAGATGAAAAATCAATATTTTAGAAATAAAACCAAGG
Found at i:1150636 original size:20 final size:20
Alignment explanation
Indices: 1150608--1150662 Score: 101
Period size: 20 Copynumber: 2.8 Consensus size: 20
1150598 AAAATGCCTG
*
1150608 AATGGATCGATACATTGAAA
1 AATGTATCGATACATTGAAA
1150628 AATGTATCGATACATTGAAA
1 AATGTATCGATACATTGAAA
1150648 AATGTATCGATACAT
1 AATGTATCGATACAT
1150663 CTCGGTAAAC
Statistics
Matches: 34, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 34 1.00
ACGTcount: A:0.44, C:0.11, G:0.16, T:0.29
Consensus pattern (20 bp):
AATGTATCGATACATTGAAA
Found at i:1150724 original size:13 final size:13
Alignment explanation
Indices: 1150681--1150706 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
1150671 ACCCAGTATA
1150681 TATCGATACAATG
1 TATCGATACAATG
1150694 TATCGATACAATG
1 TATCGATACAATG
1150707 AACAATGTAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
TATCGATACAATG
Found at i:1161477 original size:32 final size:32
Alignment explanation
Indices: 1161439--1161590 Score: 132
Period size: 32 Copynumber: 4.8 Consensus size: 32
1161429 CTAGTGGAGG
*
1161439 AACCTTTTCTAAAGCCCACATAAGCTAGTGGC
1 AACCTTTTCTAAAGCCCACACAAGCTAGTGGC
*
1161471 AACCTTTT-TCAAAGCCCACACAAG-TTGATGGC
1 AACCTTTTCT-AAAGCCCACACAAGCTAG-TGGC
* * * *
1161503 GA-CTCTTTCTAAAGCCTACACAAGTTAGTGGT
1 AACCT-TTTCTAAAGCCCACACAAGCTAGTGGC
* * ** *
1161535 AACCTTTTCTGAAGCCCGCATGAGCTGGTGGC
1 AACCTTTTCTAAAGCCCACACAAGCTAGTGGC
*
1161567 AACCCTTTT-AAAAGCCCACACAAG
1 AA-CCTTTTCTAAAGCCCACACAAG
1161591 TTGGTGGGAT
Statistics
Matches: 93, Mismatches: 20, Indels: 14
0.73 0.16 0.11
Matches are distributed among these distances:
31 5 0.05
32 77 0.83
33 11 0.12
ACGTcount: A:0.30, C:0.28, G:0.18, T:0.25
Consensus pattern (32 bp):
AACCTTTTCTAAAGCCCACACAAGCTAGTGGC
Found at i:1161731 original size:43 final size:43
Alignment explanation
Indices: 1161667--1161754 Score: 122
Period size: 43 Copynumber: 2.0 Consensus size: 43
1161657 CATCTTTTTC
* * * * *
1161667 TAAGTCCAGTGTCGCTGGCCTTGAATCAGCACATTGGCACCTT
1 TAAGTCCAATATCGCTAGCCTTGAATCAACACATTAGCACCTT
*
1161710 TAAGTCCAATATCGCTAGCCTTGAATCAACATATTAGCACCTT
1 TAAGTCCAATATCGCTAGCCTTGAATCAACACATTAGCACCTT
1161753 TA
1 TA
1161755 CCACATTTAA
Statistics
Matches: 39, Mismatches: 6, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
43 39 1.00
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (43 bp):
TAAGTCCAATATCGCTAGCCTTGAATCAACACATTAGCACCTT
Found at i:1162043 original size:43 final size:43
Alignment explanation
Indices: 1161977--1162103 Score: 193
Period size: 43 Copynumber: 3.0 Consensus size: 43
1161967 TATCATGTTA
* * * *
1161977 AAGTCCAATGTC-ACTGGCCTTGAATTAGCACATTGGCACCTAT
1 AAGTCCAATATCGA-TGGCTTTGAATCAGCATATTGGCACCTAT
1162020 AAGTCCAATATCGATGGCTTTGAATCAGCATATTGGCACCTAT
1 AAGTCCAATATCGATGGCTTTGAATCAGCATATTGGCACCTAT
*
1162063 AAGTCCAATATTGATGGCTTTGAATCAGCATATTGGCACCT
1 AAGTCCAATATCGATGGCTTTGAATCAGCATATTGGCACCT
1162104 TTACCACATT
Statistics
Matches: 78, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
43 77 0.99
44 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.19, T:0.30
Consensus pattern (43 bp):
AAGTCCAATATCGATGGCTTTGAATCAGCATATTGGCACCTAT
Found at i:1162105 original size:22 final size:22
Alignment explanation
Indices: 1162037--1162105 Score: 54
Period size: 22 Copynumber: 3.2 Consensus size: 22
1162027 ATATCGATGG
1162037 CTTTGAATCAGCATATTGGCAC
1 CTTTGAATCAGCATATTGGCAC
* ****
1162059 CTAT-AAGTC--CAATATTGATGG
1 CTTTGAA-TCAGC-ATATTGGCAC
1162080 CTTTGAATCAGCATATTGGCAC
1 CTTTGAATCAGCATATTGGCAC
1162102 CTTT
1 CTTT
1162106 ACCACATTTA
Statistics
Matches: 32, Mismatches: 10, Indels: 10
0.62 0.19 0.19
Matches are distributed among these distances:
20 1 0.03
21 13 0.41
22 17 0.53
23 1 0.03
ACGTcount: A:0.28, C:0.20, G:0.17, T:0.35
Consensus pattern (22 bp):
CTTTGAATCAGCATATTGGCAC
Found at i:1162421 original size:52 final size:51
Alignment explanation
Indices: 1162062--1162459 Score: 303
Period size: 52 Copynumber: 7.8 Consensus size: 51
1162052 TTGGCACCTA
* * * * * *
1162062 TAAGTCCAATATTGATGGCTTTGAATCAGCATATTGGCACCTTTACCA-CATT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCA-CTCTATCATC-TT
* * * *
1162114 TAAGTCCAATGTCGCTAGCCTTGAATTAGCACATTAGCA-TC-ATCATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACTCTATCATCTT
*
1162163 TAAGTCCAATGTTGCTGGCCTTGAATCAGC-TCATTGGCAC-CT-TCATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCAT-ATTGGCACTCTATCATCTT
** * * * **
1162212 TAAGTTAGACAT-T-GCTGGCCTTGAATCAACATATTGGCATCTTTAACATCCC
1 TAAG-TCCA-ATGTCGCTGGCCTTGAATCAGCATATTGGCA-CTCTATCATCTT
* * * * * *
1162264 TAA-ACCTAATGTCGTTGGCCTTGAATCAGCATATTAGTATTCTTTTCATCTT
1 TAAGTCC-AATGTCGCTGGCCTTGAATCAGCATATTGGCACTC-TATCATCTT
* * * * *
1162316 TAAGTCTAATGTCGCTGGCCGTGAATCAGCATATTGACATTCT-TCGCACCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACTCTAT--CATCTT
* * *
1162368 TAAGCCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTCTGTCATCTT
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCA-CTCTATCATCTT
* * * *
1162420 TAAGTCCAATGCCGTTGGCCATGAATCAGCACATTGGCAC
1 TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCAC
1162460 CTTAAAGCCC
Statistics
Matches: 271, Mismatches: 56, Indels: 39
0.74 0.15 0.11
Matches are distributed among these distances:
49 73 0.27
50 10 0.04
51 8 0.03
52 175 0.65
53 4 0.01
54 1 0.00
ACGTcount: A:0.26, C:0.24, G:0.17, T:0.33
Consensus pattern (51 bp):
TAAGTCCAATGTCGCTGGCCTTGAATCAGCATATTGGCACTCTATCATCTT
Found at i:1166688 original size:52 final size:51
Alignment explanation
Indices: 1166603--1166726 Score: 205
Period size: 52 Copynumber: 2.4 Consensus size: 51
1166593 ATATGAAAAG
* *
1166603 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAA
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
1166654 TTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGCAAA
1 -TTGCCTGCATGTATCGATACA-TTTAATAATGTATCGATACATCTGGGCAAA
1166706 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
1166727 AAGATCAGTG
Statistics
Matches: 69, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
51 21 0.30
52 43 0.62
53 5 0.07
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.35
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
Found at i:1166739 original size:51 final size:50
Alignment explanation
Indices: 1166603--1166746 Score: 177
Period size: 52 Copynumber: 2.8 Consensus size: 50
1166593 ATATGAAAAG
* *
1166603 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA--AAATAGTGTATCGATACATCTGGGCAAAT
1166655 TTGCCTGCATGTATCGATACATTTTAAA-A-TGTATCGATACATCTGGGCAAA-
1 TTGCCTGCATGTATCGATACA----AAATAGTGTATCGATACATCTGGGCAAAT
1166706 TTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACAAA-AT-AGTGTATCGATACA
1166747 ATGTATCGAT
Statistics
Matches: 84, Mismatches: 2, Indels: 13
0.85 0.02 0.13
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
50 1 0.01
51 33 0.39
52 42 0.50
53 1 0.01
54 4 0.05
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (50 bp):
TTGCCTGCATGTATCGATACAAAATAGTGTATCGATACATCTGGGCAAAT
Found at i:1166753 original size:13 final size:13
Alignment explanation
Indices: 1166735--1166759 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1166725 CAAAGATCAG
1166735 TGTATCGATACAA
1 TGTATCGATACAA
1166748 TGTATCGATACA
1 TGTATCGATACA
1166760 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1166837 original size:33 final size:33
Alignment explanation
Indices: 1166800--1166866 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1166790 AGTAGCTTAA
1166800 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1166833 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1166866 A
1 A
1166867 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1166840 original size:13 final size:13
Alignment explanation
Indices: 1166822--1166846 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1166812 CAAAAAAATA
1166822 TGTATCGATACAT
1 TGTATCGATACAT
1166835 TGTATCGATACA
1 TGTATCGATACA
1166847 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1168466 original size:79 final size:78
Alignment explanation
Indices: 1168361--1168742 Score: 303
Period size: 79 Copynumber: 4.8 Consensus size: 78
1168351 AAATTTCTAT
* *
1168361 AATCAGGGGTACTCTAACCCCGTTATTTCTGAGGAGATACTCCAACCCCAGTTTTTTTTTCAAAA
1 AATC-GGGATACTCTAACCCCGTTATTTCTGAGGAGATACTCCAACCCCAGGTTTTTTTTCAAAA
*
1168426 CACTAACTTTTCAC
65 CACTAATTTTTCAC
** * ** * ** *
1168440 AATCGAGGATACTCTAACCCTATTATTT-TCAAAAGGATACTCCAACCCTA-GCCTTATTTCTAA
1 AATCG-GGATACTCTAACCCCGTTATTTCTGAGGA-GATACTCCAACCCCAGGTTTTTTTTC-AA
* *
1168503 AACATTGATTTTTCAC
63 AACACTAATTTTTCAC
* * * * *
1168519 AATCCGGGATACTCCAACCCCGTTATTTTTGAGGGGATACTCCAA-CCCTGATTTTATTTTCAAA
1 AAT-CGGGATACTCTAACCCCGTTATTTCTGAGGAGATACTCCAACCCCAGGTTTT-TTTTCAAA
*
1168583 ACACTGATTTTTCAC
64 ACACTAATTTTTCAC
* * * * ** * * *
1168598 CATCGAGGGTACTCCAACCCCATTATTTCCAAGG-GAATACTCTAA-CCCAGGCTTTATTTCTAA
1 AATCG-GGATACTCTAACCCCGTTATTTCTGAGGAG-ATACTCCAACCCCAGGTTTTTTTTC-AA
1168661 AACA-TCAATTTTTCAC
63 AACACT-AATTTTTCAC
* * * *
1168677 AATCGGAGATACTCTAACCCTGTTATTTCTGA-GAGGATATTCTAACCCC-GGTTTGTTTTCAAA
1 AATCGG-GATACTCTAACCCCGTTATTTCTGAGGA-GATACTCCAACCCCAGGTTTTTTTTCAAA
1168740 ACA
64 ACA
1168743 TCGATTTTCC
Statistics
Matches: 237, Mismatches: 51, Indels: 31
0.74 0.16 0.10
Matches are distributed among these distances:
78 28 0.12
79 197 0.83
80 12 0.05
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (78 bp):
AATCGGGATACTCTAACCCCGTTATTTCTGAGGAGATACTCCAACCCCAGGTTTTTTTTCAAAAC
ACTAATTTTTCAC
Found at i:1168658 original size:158 final size:157
Alignment explanation
Indices: 1168361--1168778 Score: 470
Period size: 158 Copynumber: 2.6 Consensus size: 157
1168351 AAATTTCTAT
* * * * *
1168361 AATCAGGGGTACTCTAACCCCGTTATTTCTGAGGAGATACTCCAACCCCAGTTTTTTTTTCAAAA
1 AATCCGGGATACTCTAACCCCGTTATTTCTGAGGGGATACTCCAACCCGA-TTTTATTTTCAAAA
* * * * *
1168426 CACTAACTTTTCACAATCGAGGATACTCTAACCCTATTATTTTCAAAAGGATACTCCAACCCTAG
65 CACTGATTTTTCACCATCGAGGATACTCCAACCCCATTATTTTCAAAAGGATACTCCAACCCTAG
**
1168491 CCTTATTTCTAAAACATTGATTTTTCAC
130 CCTTATTTCTAAAACATCAATTTTTCAC
* *
1168519 AATCCGGGATACTCCAACCCCGTTATTTTTGAGGGGATACTCCAACCCTGATTTTATTTTCAAAA
1 AATCCGGGATACTCTAACCCCGTTATTTCTGAGGGGATACTCCAACCC-GATTTTATTTTCAAAA
* * * *
1168584 CACTGATTTTTCACCATCGAGGGTACTCCAACCCCATTA-TTTCCAAGGGAATACTCTAACCC-A
65 CACTGATTTTTCACCATCGAGGATACTCCAACCCCATTATTTTCAAAAGG-ATACTCCAACCCTA
*
1168647 GGCTTTATTTCTAAAACATCAATTTTTCAC
129 -GCCTTATTTCTAAAACATCAATTTTTCAC
* * * * * *
1168677 AAT-CGGAGATACTCTAACCCTGTTATTTCTGAGAGGATATTCTAACCCCG-GTTTGTTTTCAAA
1 AATCCGG-GATACTCTAACCCCGTTATTTCTGAGGGGATACTCCAA-CCCGATTTTATTTTCAAA
* * *
1168740 ACA-TCGATTTTCCCCCAT-TAGAGATACTCCAACCCCATT
64 ACACT-GATTTTTCACCATCGAG-GATACTCCAACCCCATT
1168779 TTTATCTCCA
Statistics
Matches: 222, Mismatches: 31, Indels: 15
0.83 0.12 0.06
Matches are distributed among these distances:
156 3 0.01
157 53 0.24
158 162 0.73
159 4 0.02
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (157 bp):
AATCCGGGATACTCTAACCCCGTTATTTCTGAGGGGATACTCCAACCCGATTTTATTTTCAAAAC
ACTGATTTTTCACCATCGAGGATACTCCAACCCCATTATTTTCAAAAGGATACTCCAACCCTAGC
CTTATTTCTAAAACATCAATTTTTCAC
Found at i:1169620 original size:175 final size:170
Alignment explanation
Indices: 1169252--1169632 Score: 430
Period size: 169 Copynumber: 2.2 Consensus size: 170
1169242 CCACTGTGCA
* * * *
1169252 GATTCAAGGCCTGCCACACTGGACTTAAAGGTGATGAGGATGAAGAGCGATAAAAGGACCAATAC
1 GATTCAAGGCCAGCCACATTGGACTTAAAGGTGAAGAGGATGAAAAGCGATAAAAGGACCAATAC
1169317 GTTGATTCACGGCCAACGATATTGGGTTCAAAGATGAGAAAAAGGATAAAAGAGCCAATATGCGG
66 GTTGATTCACGGCCAACGATATTGGGTTCAAAGATGAGAAAAAGGATAAAAGAGCCAATATGCGG
* * * *
1169382 CTAGCGATATTGGACTTAAAGATAAAGGTGCCAATGTGCT
131 CCAGCGACATTGAACTTAAAGATAAAGGTGCCAATATGCT
* * * * *
1169422 GATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGA-GAAAAGTGATAAAGATG-CCAATA
1 GATTCAAGGCCAGCCACATTGGACTTAAAGGTGAAGAGGATGAAAAGCGATAAA-AGGACCAATA
* * * * **
1169485 TGTTGATTCACGGCCAACGATATTGGGCTT-AAAGATGATGAAAAAGGATGTCAATGTGCTGAT-
65 CGTTGATTCACGGCCAACGATATTGGG-TTCAAAGATGA-GAAAAAGGA--TAAAAGAGCCAATA
* *
1169548 T-CAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCGATATGCT
126 TGC--GGCCAGCGACATTGAACTTAAAGAT---AAAGGTGCCAATATGCT
* *
1169597 GATTCAAGGCCAGCTAGATTGGACTTAAAGGTGAAG
1 GATTCAAGGCCAGCCACATTGGACTTAAAGGTGAAG
1169633 GTGCCAATGT
Statistics
Matches: 177, Mismatches: 24, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
169 51 0.29
170 48 0.27
171 1 0.01
172 29 0.16
175 48 0.27
ACGTcount: A:0.36, C:0.15, G:0.27, T:0.22
Consensus pattern (170 bp):
GATTCAAGGCCAGCCACATTGGACTTAAAGGTGAAGAGGATGAAAAGCGATAAAAGGACCAATAC
GTTGATTCACGGCCAACGATATTGGGTTCAAAGATGAGAAAAAGGATAAAAGAGCCAATATGCGG
CCAGCGACATTGAACTTAAAGATAAAGGTGCCAATATGCT
Found at i:1169653 original size:49 final size:49
Alignment explanation
Indices: 1169536--1170242 Score: 958
Period size: 49 Copynumber: 14.5 Consensus size: 49
1169526 AAAAGGATGT
*
1169536 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* * * *
1169588 CGATATGCTGATTCAAGGCCAGCTAGATTGGACTTAAAGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
1169637 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
1169686 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
1169735 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * ** *
1169784 CAATGTGCTAAGTCAAGGTGAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1169833 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
1169876 CAATGTGCTGATTCAAGGCCAGCTACATTGGACCTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
1169925 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
1169974 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * * *
1170023 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
1170072 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1170121 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA-GATGAAGGTGC
* * *
1170171 CAATGTGCTGAGTCAAGGCCAGCTACATTGAACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
1170220 CAATATGCTGATTCAAGGCCAGC
1 CAATGTGCTGATTCAAGGCCAGC
1170243 CATATTGGGC
Statistics
Matches: 572, Mismatches: 76, Indels: 17
0.86 0.11 0.03
Matches are distributed among these distances:
43 38 0.07
45 1 0.00
47 1 0.00
49 452 0.79
50 43 0.08
51 1 0.00
52 36 0.06
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.24
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:1169724 original size:98 final size:98
Alignment explanation
Indices: 1169527--1170260 Score: 1120
Period size: 98 Copynumber: 7.5 Consensus size: 98
1169517 AGATGATGAA
* * * * * *
1169527 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCGAT
1 AAAGG-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGT-G--AAGGTGCCAAT
* * * *
1169592 ATGCTGATTCAAGGCCAGCTAGATTGGACTTAAAGGT
62 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
* * * * *
1169629 GAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGGTGCCAATGTGC
1169694 TGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
66 TGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
*
1169727 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGGTGCCAATGTGC
* **
1169792 TAAGTCAAGGTGAGCTACATTGGACTTAAAGAT
66 TGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
*
1169825 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT--A----AAGGTGCCAATGTGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGGTGCCAATGTGC
* *
1169884 TGATTCAAGGCCAGCTACATTGGACCTAAAGAT
66 TGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
*
1169917 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGGTGCCAATGTGC
1169982 TGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
66 TGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
* *
1170015 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAATGGTGAAGGTGCCAATGTGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGGTGCCAATGTGC
1170080 TGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
66 TGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
1170113 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAATGGTGAAGGTGCCAATGTG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA-GGTGAAGGTGCCAATGTG
*
1170178 CTGAGTCAAGGCCAGCTACATTGAACTTAAAGAT
65 CTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
* *
1170212 AAAGGTGCCAATATGCTGATTCAAGGCCAGCCATATTGGGCTTAGAAGG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA-AAGG
1170261 GTTGCCACCG
Statistics
Matches: 589, Mismatches: 35, Indels: 19
0.92 0.05 0.03
Matches are distributed among these distances:
92 85 0.14
98 361 0.61
99 95 0.16
100 3 0.01
101 41 0.07
102 4 0.01
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (98 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGGTGCCAATGTGC
TGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
Found at i:1170098 original size:288 final size:289
Alignment explanation
Indices: 1169579--1170255 Score: 1113
Period size: 288 Copynumber: 2.3 Consensus size: 289
1169569 TTAAAGATGG
* * * * * *
1169579 AAAAGGTGCCGATATGCTGATTCAAGGCCAGCTAGATTGGACTTAAAGGTGAAGGTGCCAATGTG
1 AAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATG
* *
1169644 CTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGC
66 CTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGC
*
1169709 TACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATG
131 TACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAATG
**
1169774 GTGAAGGTGCCAATGTGCTAAGTCAAGGTGAGCTACATTGGACTTAAAGATAAAGGTGCCAATAT
196 GTGAAGGTGCCAATGTGCTAAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATAT
1169839 GCTGATTCAAGGCCAGCGATATTGGACTT
261 GCTGATTCAAGGCCAGCGATATTGGACTT
*
1169868 -AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACCTAAAGATAAAGGTGCCAATATG
1 AAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATG
* *
1169932 CTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGC
66 CTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGC
1169997 TACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAATG
131 TACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAATG
*
1170062 GTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATAT
196 GTGAAGGTGCCAATGTGCTAAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATAT
*
1170127 GCTGATTCAAGGCCAGCTATATTGGACTT
261 GCTGATTCAAGGCCAGCGATATTGGACTT
* *
1170156 AAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGAACTTAAAGATAAAGGTGCC
1 -AA-----AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCC
* *
1170221 AATATGCTGATTCAAGGCCAGCCATATTGGGCTTA
60 AATATGCTGATTCAAGGCCAGCTATATTGGACTTA
1170256 GAAGGGTTGC
Statistics
Matches: 360, Mismatches: 21, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
288 272 0.76
290 1 0.00
295 87 0.24
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.25
Consensus pattern (289 bp):
AAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATG
CTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGC
TACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAATG
GTGAAGGTGCCAATGTGCTAAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATAT
GCTGATTCAAGGCCAGCGATATTGGACTT
Found at i:1170299 original size:33 final size:33
Alignment explanation
Indices: 1170255--1170359 Score: 162
Period size: 32 Copynumber: 3.2 Consensus size: 33
1170245 TATTGGGCTT
1170255 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTGG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTGG
*
1170288 AAGAA-GGTTGCCACCAACTTGTGTGGGCTTTGG
1 -AGAAGGGTTGCCACCGACTTGTGTGGGCTTTGG
*
1170321 -GAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTGG
1170353 A-AAGGGT
1 AGAAGGGT
1170360 GAAAGATGCC
Statistics
Matches: 66, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
31 3 0.05
32 32 0.48
33 27 0.41
34 4 0.06
ACGTcount: A:0.19, C:0.17, G:0.37, T:0.27
Consensus pattern (33 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTGG
Found at i:1170471 original size:34 final size:34
Alignment explanation
Indices: 1170361--1170739 Score: 399
Period size: 34 Copynumber: 11.4 Consensus size: 34
1170351 AGAAAGGGTG
* * *
1170361 AAAGA-TGCCACGAAGTTGTGGACTTAAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
*
1170394 CAAG-GTGCCACGGAGTTGTGGGCTTTAAAAGGGAAA
1 AAAGAGTGCCACGGAGTTGTGGGC-TTAAAA-GG-AA
*
1170430 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
* *
1170464 AAAGAGTGCCACGGAGTTGTAGGCTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
* *
1170498 AAAGAGTGCCACGGAGTTGTGGACTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
*
1170532 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGG-A
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
* *
1170565 AAAGAGTGCCACGTAGTTGTGGGCTTTAAAGG-A
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
* * *
1170598 AAAGAGTGCCACGTAGTCGTGGACTTAAAA-G--
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
1170629 ---G-GTGCCACGGAGTTGTGGGCTTTGAAAAGGGAA
1 AAAGAGTGCCACGGAGTTGTGGGC-TT-AAAA-GGAA
*** *
1170662 AAAGAGTGCCATAAAGTTGTGGGCTTTAAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGC-TTAAAAGGAA
* * *
1170697 AAAGTGTGCCACAGAGTTGTGGGCTTTAAA-GAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
1170730 AAA-A-TGCCAC
1 AAAGAGTGCCAC
1170740 TAAGTCGTGG
Statistics
Matches: 303, Mismatches: 28, Indels: 32
0.83 0.08 0.09
Matches are distributed among these distances:
27 16 0.05
28 3 0.01
29 4 0.01
31 7 0.02
32 1 0.00
33 83 0.27
34 109 0.36
35 27 0.09
36 15 0.05
37 38 0.13
ACGTcount: A:0.35, C:0.13, G:0.33, T:0.20
Consensus pattern (34 bp):
AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
Found at i:1170706 original size:35 final size:36
Alignment explanation
Indices: 1170624--1170733 Score: 127
Period size: 35 Copynumber: 3.1 Consensus size: 36
1170614 TCGTGGACTT
* ** *
1170624 AAAAGGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGA
1 AAAAGAGTGCCACAAAGTTGTGGGCTTT-AAAAGAGA
*
1170661 AAAAGAGTGCCATAAAGTTGTGGGCTTTAAAA-AGA
1 AAAAGAGTGCCACAAAGTTGTGGGCTTTAAAAGAGA
* *
1170696 AAAAGTGTGCCACAGAGTTGTGGGCTTT-AAAGA-A
1 AAAAGAGTGCCACAAAGTTGTGGGCTTTAAAAGAGA
1170730 AAAA
1 AAAA
1170734 TGCCACTAAG
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
34 8 0.12
35 28 0.44
36 4 0.06
37 24 0.38
ACGTcount: A:0.38, C:0.10, G:0.31, T:0.21
Consensus pattern (36 bp):
AAAAGAGTGCCACAAAGTTGTGGGCTTTAAAAGAGA
Found at i:1170738 original size:130 final size:127
Alignment explanation
Indices: 1170361--1170753 Score: 361
Period size: 130 Copynumber: 3.0 Consensus size: 127
1170351 AGAAAGGGTG
* * * **
1170361 AAAGA-TGCCACGAAGTTGTGGACTTAAAAAGAACAAG-GTGCCACGGAGTTGTGGGCTTTAAAA
1 AAAGAGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAAAGTTGTGGGC-TTAAAA
* * ** *
1170424 GGGAAAAAAGAGTGCCACGGAGTTGTGGGC-TTAGAAGGAAAAAGAGTGCCACGGAGTTGTAGG-
65 --G-AAAAAGAGTGCCACGTAGTTGTGGGCTTTA-AAGG-AAAAGAATGCCACTAAGTCGT-GGA
1170487 CTTAGAAGGAA
124 CTT-------A
* ** *
1170498 AAAGAGTGCCACGGAGTTGTGGACTTAGAAGGAAAAAGAGTGCCACGGAGTTGTGGGCTTAGAAG
1 AAAGAGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAAAGTTGTGGGCTTAAAAG
* *
1170563 GAAAAGAGTGCCACGTAGTTGTGGGCTTTAAAGGAAAAGAGTGCCACGT-AGTCGTGGACTTA
66 AAAAAGAGTGCCACGTAGTTGTGGGCTTTAAAGGAAAAGAATGCCAC-TAAGTCGTGGACTTA
* * *
1170625 AAAGGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGAAAAAGAGTGCCATAAAGTTGTGGGCTTTA
1 AAAGAGTGCCACGGAGTTGTGGAC-TT-AAAA-GGAAAAAGAGTGCCACAAAGTTGTGGGC-TT-
*
1170690 AAAAGAAAAAGTGTGCCACAG-AGTTGTGGGCTTTAAA-GAAAA-AATGCCACTAAGTCGTGGAC
61 AAAAGAAAAAGAGTGCCAC-GTAGTTGTGGGCTTTAAAGGAAAAGAATGCCACTAAGTCGTGGAC
1170752 TT
125 TT
1170754 TGAGACAAAA
Statistics
Matches: 225, Mismatches: 19, Indels: 31
0.82 0.07 0.11
Matches are distributed among these distances:
127 23 0.10
128 2 0.01
129 4 0.02
130 44 0.20
131 7 0.03
132 32 0.14
133 3 0.01
134 21 0.09
135 28 0.12
136 4 0.02
137 5 0.02
138 33 0.15
139 19 0.08
ACGTcount: A:0.34, C:0.13, G:0.33, T:0.20
Consensus pattern (127 bp):
AAAGAGTGCCACGGAGTTGTGGACTTAAAAGGAAAAAGAGTGCCACAAAGTTGTGGGCTTAAAAG
AAAAAGAGTGCCACGTAGTTGTGGGCTTTAAAGGAAAAGAATGCCACTAAGTCGTGGACTTA
Found at i:1170765 original size:30 final size:30
Alignment explanation
Indices: 1170730--1170786 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
1170720 CTTTAAAGAA
1170730 AAAATGCCACTAAGTCGTGGACTTTGAGAC
1 AAAATGCCACTAAGTCGTGGACTTTGAGAC
*
1170760 AAAATGCCACTGAGTCGTGGACTTTGA
1 AAAATGCCACTAAGTCGTGGACTTTGA
1170787 AAAGGTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.25
Consensus pattern (30 bp):
AAAATGCCACTAAGTCGTGGACTTTGAGAC
Found at i:1171747 original size:12 final size:12
Alignment explanation
Indices: 1171726--1171763 Score: 60
Period size: 12 Copynumber: 3.2 Consensus size: 12
1171716 TGAAAAGGGG
*
1171726 TTTTTCCTCTTT
1 TTTTTTCTCTTT
1171738 TTTTTTCTCTTT
1 TTTTTTCTCTTT
1171750 TTTTTTCT-TTT
1 TTTTTTCTCTTT
1171761 TTT
1 TTT
1171764 GTTTTGTTTC
Statistics
Matches: 25, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
11 6 0.24
12 19 0.76
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (12 bp):
TTTTTTCTCTTT
Found at i:1179035 original size:52 final size:51
Alignment explanation
Indices: 1178950--1179073 Score: 205
Period size: 52 Copynumber: 2.4 Consensus size: 51
1178940 ATATGAAAAG
* *
1178950 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAA
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
1179001 TTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGCAAA
1 -TTGCCTGCATGTATCGATACA-TTTAATAATGTATCGATACATCTGGGCAAA
1179053 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
1179074 AAGATCAGTG
Statistics
Matches: 69, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
51 21 0.30
52 43 0.62
53 5 0.07
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.35
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
Found at i:1179086 original size:51 final size:50
Alignment explanation
Indices: 1178950--1179093 Score: 177
Period size: 52 Copynumber: 2.8 Consensus size: 50
1178940 ATATGAAAAG
* *
1178950 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA--AAATAGTGTATCGATACATCTGGGCAAAT
1179002 TTGCCTGCATGTATCGATACATTTTAAA-A-TGTATCGATACATCTGGGCAAA-
1 TTGCCTGCATGTATCGATACA----AAATAGTGTATCGATACATCTGGGCAAAT
1179053 TTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACAAA-AT-AGTGTATCGATACA
1179094 ATGTATCGAT
Statistics
Matches: 84, Mismatches: 2, Indels: 13
0.85 0.02 0.13
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
50 1 0.01
51 33 0.39
52 42 0.50
53 1 0.01
54 4 0.05
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (50 bp):
TTGCCTGCATGTATCGATACAAAATAGTGTATCGATACATCTGGGCAAAT
Found at i:1179100 original size:13 final size:13
Alignment explanation
Indices: 1179082--1179106 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1179072 CAAAGATCAG
1179082 TGTATCGATACAA
1 TGTATCGATACAA
1179095 TGTATCGATACA
1 TGTATCGATACA
1179107 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1179184 original size:33 final size:33
Alignment explanation
Indices: 1179147--1179213 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1179137 AGTAGCTTAA
1179147 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1179180 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1179213 A
1 A
1179214 AATCGTTGAG
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1179187 original size:13 final size:13
Alignment explanation
Indices: 1179169--1179193 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1179159 CAAAAAAATA
1179169 TGTATCGATACAT
1 TGTATCGATACAT
1179182 TGTATCGATACA
1 TGTATCGATACA
1179194 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1180809 original size:79 final size:78
Alignment explanation
Indices: 1180704--1181085 Score: 303
Period size: 79 Copynumber: 4.8 Consensus size: 78
1180694 AAATTTCTAT
* *
1180704 AATCAGGGGTACTCTAACCCCGTTATTTCTGAGGAGATACTCCAACCCCAGTTTTTTTTTCAAAA
1 AATC-GGGATACTCTAACCCCGTTATTTCTGAGGAGATACTCCAACCCCAGGTTTTTTTTCAAAA
*
1180769 CACTAACTTTTCAC
65 CACTAATTTTTCAC
** * ** * ** *
1180783 AATCGAGGATACTCTAACCCTATTATTT-TCAAAAGGATACTCCAACCCTA-GCCTTATTTCTAA
1 AATCG-GGATACTCTAACCCCGTTATTTCTGAGGA-GATACTCCAACCCCAGGTTTTTTTTC-AA
* *
1180846 AACATTGATTTTTCAC
63 AACACTAATTTTTCAC
* * * * *
1180862 AATCCGGGATACTCCAACCCCGTTATTTTTGAGGGGATACTCCAA-CCCTGATTTTATTTTCAAA
1 AAT-CGGGATACTCTAACCCCGTTATTTCTGAGGAGATACTCCAACCCCAGGTTTT-TTTTCAAA
*
1180926 ACACTGATTTTTCAC
64 ACACTAATTTTTCAC
* * * * ** * * *
1180941 CATCGAGGGTACTCCAACCCCATTATTTCCAAGG-GAATACTCTAA-CCCAGGCTTTATTTCTAA
1 AATCG-GGATACTCTAACCCCGTTATTTCTGAGGAG-ATACTCCAACCCCAGGTTTTTTTTC-AA
1181004 AACA-TCAATTTTTCAC
63 AACACT-AATTTTTCAC
* * * *
1181020 AATCGGAGATACTCTAACCCTGTTATTTCTGA-GAGGATATTCTAACCCC-GGTTTGTTTTCAAA
1 AATCGG-GATACTCTAACCCCGTTATTTCTGAGGA-GATACTCCAACCCCAGGTTTTTTTTCAAA
1181083 ACA
64 ACA
1181086 TCGATTTTCC
Statistics
Matches: 237, Mismatches: 51, Indels: 31
0.74 0.16 0.10
Matches are distributed among these distances:
78 28 0.12
79 197 0.83
80 12 0.05
ACGTcount: A:0.29, C:0.25, G:0.13, T:0.33
Consensus pattern (78 bp):
AATCGGGATACTCTAACCCCGTTATTTCTGAGGAGATACTCCAACCCCAGGTTTTTTTTCAAAAC
ACTAATTTTTCAC
Found at i:1181001 original size:158 final size:157
Alignment explanation
Indices: 1180704--1181121 Score: 470
Period size: 158 Copynumber: 2.6 Consensus size: 157
1180694 AAATTTCTAT
* * * * *
1180704 AATCAGGGGTACTCTAACCCCGTTATTTCTGAGGAGATACTCCAACCCCAGTTTTTTTTTCAAAA
1 AATCCGGGATACTCTAACCCCGTTATTTCTGAGGGGATACTCCAACCCGA-TTTTATTTTCAAAA
* * * * *
1180769 CACTAACTTTTCACAATCGAGGATACTCTAACCCTATTATTTTCAAAAGGATACTCCAACCCTAG
65 CACTGATTTTTCACCATCGAGGATACTCCAACCCCATTATTTTCAAAAGGATACTCCAACCCTAG
**
1180834 CCTTATTTCTAAAACATTGATTTTTCAC
130 CCTTATTTCTAAAACATCAATTTTTCAC
* *
1180862 AATCCGGGATACTCCAACCCCGTTATTTTTGAGGGGATACTCCAACCCTGATTTTATTTTCAAAA
1 AATCCGGGATACTCTAACCCCGTTATTTCTGAGGGGATACTCCAACCC-GATTTTATTTTCAAAA
* * * *
1180927 CACTGATTTTTCACCATCGAGGGTACTCCAACCCCATTA-TTTCCAAGGGAATACTCTAACCC-A
65 CACTGATTTTTCACCATCGAGGATACTCCAACCCCATTATTTTCAAAAGG-ATACTCCAACCCTA
*
1180990 GGCTTTATTTCTAAAACATCAATTTTTCAC
129 -GCCTTATTTCTAAAACATCAATTTTTCAC
* * * * * *
1181020 AAT-CGGAGATACTCTAACCCTGTTATTTCTGAGAGGATATTCTAACCCCG-GTTTGTTTTCAAA
1 AATCCGG-GATACTCTAACCCCGTTATTTCTGAGGGGATACTCCAA-CCCGATTTTATTTTCAAA
* * *
1181083 ACA-TCGATTTTCCCCCAT-TAGAGATACTCCAACCCCATT
64 ACACT-GATTTTTCACCATCGAG-GATACTCCAACCCCATT
1181122 TTTATCTCCA
Statistics
Matches: 222, Mismatches: 31, Indels: 15
0.83 0.12 0.06
Matches are distributed among these distances:
156 3 0.01
157 53 0.24
158 162 0.73
159 4 0.02
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (157 bp):
AATCCGGGATACTCTAACCCCGTTATTTCTGAGGGGATACTCCAACCCGATTTTATTTTCAAAAC
ACTGATTTTTCACCATCGAGGATACTCCAACCCCATTATTTTCAAAAGGATACTCCAACCCTAGC
CTTATTTCTAAAACATCAATTTTTCAC
Found at i:1181996 original size:49 final size:49
Alignment explanation
Indices: 1181879--1182584 Score: 949
Period size: 49 Copynumber: 14.5 Consensus size: 49
1181869 AAAAGGATGT
*
1181879 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* * * *
1181931 CGATATGCTGATTCAAGGCCAGCTAGATTGGACTTAAAGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
1181980 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
1182029 CAATGTGCTGAGTCAAGGCCAGCTACA-TGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
1182077 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * ** *
1182126 CAATGTGCTAAGTCAAGGTGAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1182175 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
1182218 CAATGTGCTGATTCAAGGCCAGCTACATTGGACCTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
1182267 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
1182316 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * * *
1182365 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
1182414 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1182463 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA-GATGAAGGTGC
* * *
1182513 CAATGTGCTGAGTCAAGGCCAGCTACATTGAACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
1182562 CAATATGCTGATTCAAGGCCAGC
1 CAATGTGCTGATTCAAGGCCAGC
1182585 CATATTGGGC
Statistics
Matches: 570, Mismatches: 76, Indels: 19
0.86 0.11 0.03
Matches are distributed among these distances:
43 38 0.07
45 1 0.00
47 1 0.00
48 44 0.08
49 406 0.71
50 43 0.08
51 1 0.00
52 36 0.06
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.24
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:1182203 original size:98 final size:98
Alignment explanation
Indices: 1181870--1182597 Score: 1119
Period size: 98 Copynumber: 7.4 Consensus size: 98
1181860 AGATGATGAA
* * * * ** *
1181870 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCGAT
1 AAAGG-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT--A-ATGGTGAAGGTGCCAAT
* * * *
1181935 ATGCTGATTCAAGGCCAGCTAGATTGGACTTAAAGGT
62 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
* * * * * *
1181972 GAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGC
1182037 TGAGTCAAGGCCAGCTACA-TGGACTTAAAGAT
66 TGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
1182069 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGC
* **
1182134 TAAGTCAAGGTGAGCTACATTGGACTTAAAGAT
66 TGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
*
1182167 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT-A-----AAGGTGCCAATGTGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGC
* *
1182226 TGATTCAAGGCCAGCTACATTGGACCTAAAGAT
66 TGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
1182259 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGC
1182324 TGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
66 TGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
*
1182357 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAATGGTGAAGGTGCCAATGTGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGC
1182422 TGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
66 TGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
1182455 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAATGGTGAAGGTGCCAATGTG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-AATGGTGAAGGTGCCAATGTG
*
1182520 CTGAGTCAAGGCCAGCTACATTGAACTTAAAGAT
65 CTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
* *
1182554 AAAGGTGCCAATATGCTGATTCAAGGCCAGCCATATTGGGCTTA
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA
1182598 GAAGGGTTGC
Statistics
Matches: 582, Mismatches: 36, Indels: 20
0.91 0.06 0.03
Matches are distributed among these distances:
92 85 0.15
93 1 0.00
97 88 0.15
98 273 0.47
99 96 0.16
101 35 0.06
102 4 0.01
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (98 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGC
TGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
Found at i:1182307 original size:190 final size:193
Alignment explanation
Indices: 1181870--1182602 Score: 1109
Period size: 190 Copynumber: 3.8 Consensus size: 193
1181860 AGATGATGAA
* * * * ** *
1181870 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCGAT
1 AAAGG-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-AA-ATGGTGAAGGTGCCAAT
* * * * * * *
1181935 ATGCTGATTCAAGGCCAGCTAGATTGGACTTAAAGGTGAAGGTGCCAATGTGCTGAGTCAAGGCC
63 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCC
* *
1182000 AGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACA-TGGACTTA
128 AGCGATATTGGACTT--A-A-GAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTA
1182064 AAGAT
189 AAGAT
1182069 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-AATGGTGAAGGTGCCAATGTG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAATGGTGAAGGTGCCAATGTG
* **
1182133 CTAAGTCAAGGTGAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGC
66 CTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGC
* *
1182198 GATATTGGACTT-A-AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACCTAAAGAT
131 GATATTGGACTTAAGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
1182259 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTT-AATGGTGAAGGTGCCAATGTG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAATGGTGAAGGTGCCAATGTG
1182323 CTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGC
66 CTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGC
1182388 GATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAG
131 GATATTGGACTTAA----GAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAG
1182453 AT
192 AT
1182455 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAATGGTGAAGGTGCCAATGTG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAATGGTGAAGGTGCCAATGTG
*
1182520 CTGAGTCAAGGCCAGCTACATTGAACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGC
66 CTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGC
* *
1182585 CATATTGGGCTT-AGAAGG
131 GATATTGGACTTAAGAAGG
1182603 GTTGCCACCG
Statistics
Matches: 497, Mismatches: 29, Indels: 23
0.91 0.05 0.04
Matches are distributed among these distances:
189 33 0.07
190 150 0.30
191 2 0.00
192 5 0.01
195 82 0.16
196 91 0.18
197 95 0.19
198 34 0.07
199 5 0.01
ACGTcount: A:0.32, C:0.17, G:0.27, T:0.24
Consensus pattern (193 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAATGGTGAAGGTGCCAATGTG
CTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGC
GATATTGGACTTAAGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
Found at i:1182641 original size:33 final size:33
Alignment explanation
Indices: 1182597--1182701 Score: 162
Period size: 32 Copynumber: 3.2 Consensus size: 33
1182587 TATTGGGCTT
1182597 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTGG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTGG
*
1182630 AAGAA-GGTTGCCACCAACTTGTGTGGGCTTTGG
1 -AGAAGGGTTGCCACCGACTTGTGTGGGCTTTGG
*
1182663 -GAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTGG
1182695 A-AAGGGT
1 AGAAGGGT
1182702 GAAAGATGCC
Statistics
Matches: 66, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
31 3 0.05
32 32 0.48
33 27 0.41
34 4 0.06
ACGTcount: A:0.19, C:0.17, G:0.37, T:0.27
Consensus pattern (33 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTGG
Found at i:1182813 original size:34 final size:34
Alignment explanation
Indices: 1182703--1183081 Score: 408
Period size: 34 Copynumber: 11.4 Consensus size: 34
1182693 AGAAAGGGTG
* * *
1182703 AAAGA-TGCCACGAAGTTGTGGACTTAAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
*
1182736 CAAG-GTGCCACGGAGTTGTGGGCTTTAAAAGGGAAA
1 AAAGAGTGCCACGGAGTTGTGGGC-TTAAAA-GG-AA
*
1182772 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
*
1182806 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
* *
1182840 AAAGAGTGCCACGGAGTTGTGGACTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
*
1182874 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGG-A
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
* *
1182907 AAAGAGTGCCACGTAGTTGTGGGCTTTAAAGG-A
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
* * *
1182940 AAAGAGTGCCACGTAGTCGTGGACTTAAAA-G--
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
1182971 ---G-GTGCCACGGAGTTGTGGGCTTTGAAAAGGGAA
1 AAAGAGTGCCACGGAGTTGTGGGC-TT-AAAA-GGAA
*** *
1183004 AAAGAGTGCCATAAAGTTGTGGGCTTTAAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGC-TTAAAAGGAA
* * *
1183039 AAAGTGTGCCACAGAGTTGTGGGCTTTAAA-GAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
1183072 AAA-A-TGCCAC
1 AAAGAGTGCCAC
1183082 TAAGTCGTGG
Statistics
Matches: 305, Mismatches: 26, Indels: 32
0.84 0.07 0.09
Matches are distributed among these distances:
27 16 0.05
28 3 0.01
29 4 0.01
31 7 0.02
32 1 0.00
33 83 0.27
34 111 0.36
35 27 0.09
36 15 0.05
37 38 0.12
ACGTcount: A:0.34, C:0.13, G:0.33, T:0.20
Consensus pattern (34 bp):
AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
Found at i:1183048 original size:35 final size:36
Alignment explanation
Indices: 1182966--1183075 Score: 127
Period size: 35 Copynumber: 3.1 Consensus size: 36
1182956 TCGTGGACTT
* ** *
1182966 AAAAGGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGA
1 AAAAGAGTGCCACAAAGTTGTGGGCTTT-AAAAGAGA
*
1183003 AAAAGAGTGCCATAAAGTTGTGGGCTTTAAAA-AGA
1 AAAAGAGTGCCACAAAGTTGTGGGCTTTAAAAGAGA
* *
1183038 AAAAGTGTGCCACAGAGTTGTGGGCTTT-AAAGA-A
1 AAAAGAGTGCCACAAAGTTGTGGGCTTTAAAAGAGA
1183072 AAAA
1 AAAA
1183076 TGCCACTAAG
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
34 8 0.12
35 28 0.44
36 4 0.06
37 24 0.38
ACGTcount: A:0.38, C:0.10, G:0.31, T:0.21
Consensus pattern (36 bp):
AAAAGAGTGCCACAAAGTTGTGGGCTTTAAAAGAGA
Found at i:1183107 original size:30 final size:30
Alignment explanation
Indices: 1183072--1183128 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
1183062 CTTTAAAGAA
1183072 AAAATGCCACTAAGTCGTGGACTTTGAGAC
1 AAAATGCCACTAAGTCGTGGACTTTGAGAC
*
1183102 AAAATGCCACTGAGTCGTGGACTTTGA
1 AAAATGCCACTAAGTCGTGGACTTTGA
1183129 AAAGGTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.25
Consensus pattern (30 bp):
AAAATGCCACTAAGTCGTGGACTTTGAGAC
Found at i:1184090 original size:13 final size:13
Alignment explanation
Indices: 1184068--1184111 Score: 56
Period size: 12 Copynumber: 3.5 Consensus size: 13
1184058 TGAAAAGGGG
*
1184068 TTTTTCCTCTTTT
1 TTTTTTCTCTTTT
1184081 TTTTTTCTC-TTT
1 TTTTTTCTCTTTT
1184093 TTTTTTCT-TTTT
1 TTTTTTCTCTTTT
1184105 TTGTTTT
1 TT-TTTT
1184112 GTTTCTTTTT
Statistics
Matches: 28, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
12 16 0.57
13 12 0.43
ACGTcount: A:0.00, C:0.14, G:0.02, T:0.84
Consensus pattern (13 bp):
TTTTTTCTCTTTT
Found at i:1191390 original size:52 final size:51
Alignment explanation
Indices: 1191305--1191428 Score: 205
Period size: 52 Copynumber: 2.4 Consensus size: 51
1191295 ATATGAAAAG
* *
1191305 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAA
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
1191356 TTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGCAAA
1 -TTGCCTGCATGTATCGATACA-TTTAATAATGTATCGATACATCTGGGCAAA
1191408 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
1191429 AAGATCAGTG
Statistics
Matches: 69, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
51 21 0.30
52 43 0.62
53 5 0.07
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.35
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
Found at i:1191441 original size:51 final size:50
Alignment explanation
Indices: 1191305--1191448 Score: 177
Period size: 52 Copynumber: 2.8 Consensus size: 50
1191295 ATATGAAAAG
* *
1191305 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA--AAATAGTGTATCGATACATCTGGGCAAAT
1191357 TTGCCTGCATGTATCGATACATTTTAAA-A-TGTATCGATACATCTGGGCAAA-
1 TTGCCTGCATGTATCGATACA----AAATAGTGTATCGATACATCTGGGCAAAT
1191408 TTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACAAA-AT-AGTGTATCGATACA
1191449 ATGTATCGAT
Statistics
Matches: 84, Mismatches: 2, Indels: 13
0.85 0.02 0.13
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
50 1 0.01
51 33 0.39
52 42 0.50
53 1 0.01
54 4 0.05
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (50 bp):
TTGCCTGCATGTATCGATACAAAATAGTGTATCGATACATCTGGGCAAAT
Found at i:1191455 original size:13 final size:13
Alignment explanation
Indices: 1191437--1191461 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1191427 CAAAGATCAG
1191437 TGTATCGATACAA
1 TGTATCGATACAA
1191450 TGTATCGATACA
1 TGTATCGATACA
1191462 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1191539 original size:33 final size:33
Alignment explanation
Indices: 1191502--1191568 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1191492 AGTAGCTTAA
1191502 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1191535 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1191568 A
1 A
1191569 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1191542 original size:13 final size:13
Alignment explanation
Indices: 1191524--1191548 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1191514 CAAAAAAATA
1191524 TGTATCGATACAT
1 TGTATCGATACAT
1191537 TGTATCGATACA
1 TGTATCGATACA
1191549 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1193339 original size:158 final size:156
Alignment explanation
Indices: 1193063--1193479 Score: 475
Period size: 158 Copynumber: 2.6 Consensus size: 156
1193053 AAATTTCTAT
* * * *
1193063 AATCAGGGGTACTCTAACCCCGTTATTTCTGAGGAGATACTCCAACCCCAGTTTTTTTTCAAAAC
1 AATCCGGGATACTCTAACCCCGTTATTTCTGAGGGGATACTCCAACCCGA-TTTTTTTTCAAAAC
* * * * *
1193128 ACTAACTTTTCACAATCGAGGATACTCTAACCCTATTATTTTCAAAAGGATACTCCAACCCTA-G
65 ACTGATTTTTCACCATCGAGGATACTCCAACCCCATTATTTTCAAAAGGATACTCCAACCC-AGG
**
1193192 CCTTATTTCTAAAACATTGATTTTTCAC
129 CCTTATTTCTAAAACATCAATTTTTCAC
* *
1193220 AATCCGGGATACTCCAACCCCGTTATTTTTGAGGGGATACTCCAACCCTGATTTTATTTTCAAAA
1 AATCCGGGATACTCTAACCCCGTTATTTCTGAGGGGATACTCCAACCC-GATTTT-TTTTCAAAA
* * * *
1193285 CACTGATTTTTCACCATCGAGGGTACTCCAACCCCATTA-TTTCCAAGGGAATACTCTAACCCAG
64 CACTGATTTTTCACCATCGAGGATACTCCAACCCCATTATTTTCAAAAGG-ATACTCCAACCCAG
*
1193349 GCTTTATTTCTAAAACATCAATTTTTCAC
128 GCCTTATTTCTAAAACATCAATTTTTCAC
* * * * * *
1193378 AAT-CGGAGATACTCTAACCCTGTTATTTCTGAGAGGATATTCTAACCCCGGTTTGTTTTCAAAA
1 AATCCGG-GATACTCTAACCCCGTTATTTCTGAGGGGATACTCCAA-CCCGATTTTTTTTCAAAA
* * *
1193442 CA-TCGATTTTCCCCCAT-TAGAGATACTCCAACCCCATT
64 CACT-GATTTTTCACCATCGAG-GATACTCCAACCCCATT
1193480 TTTATCTCCA
Statistics
Matches: 222, Mismatches: 30, Indels: 16
0.83 0.11 0.06
Matches are distributed among these distances:
156 3 0.01
157 97 0.44
158 119 0.54
159 3 0.01
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (156 bp):
AATCCGGGATACTCTAACCCCGTTATTTCTGAGGGGATACTCCAACCCGATTTTTTTTCAAAACA
CTGATTTTTCACCATCGAGGATACTCCAACCCCATTATTTTCAAAAGGATACTCCAACCCAGGCC
TTATTTCTAAAACATCAATTTTTCAC
Found at i:1193422 original size:79 final size:78
Alignment explanation
Indices: 1193072--1193451 Score: 312
Period size: 79 Copynumber: 4.8 Consensus size: 78
1193062 TAATCAGGGG
* * * *
1193072 TACTCTAACCCCGTTATTTCTGAGGAGATACTCCAACCCCA-GTTTTTTTTC-AAAACA-CTAAC
1 TACTCTAACCCCGTTATTTCTGAGG-GATACTCCAA-CCCAGGCTTTATTTCTAAAACATC-GAT
1193134 TTTTCACAATCGAGGA
63 TTTTCACAATCGAGGA
** ** * * *
1193150 TACTCTAACCCTATTATTTTCAAAAGGATACTCCAACCCTA-GCCTTATTTCTAAAACATTGATT
1 TACTCTAACCCCGTTA-TTTCTGAGGGATACTCCAACCC-AGGCTTTATTTCTAAAACATCGATT
1193214 TTTCACAATCCG-GGA
64 TTTCACAAT-CGAGGA
* * * **
1193229 TACTCCAACCCCGTTATTTTTGAGGGGATACTCCAACCCTGATTTTATTT-TCAAAACA-CTGAT
1 TACTCTAACCCCGTTATTTCTGA-GGGATACTCCAACCCAGGCTTTATTTCT-AAAACATC-GAT
* *
1193292 TTTTCACCATCGAGGG
63 TTTTCACAATCGAGGA
* * ** * *
1193308 TACTCCAACCCCATTATTTCCAAGGGAATACTCTAACCCAGGCTTTATTTCTAAAACATCAATTT
1 TACTCTAACCCCGTTATTTCTGAGGG-ATACTCCAACCCAGGCTTTATTTCTAAAACATCGATTT
1193373 TTCACAATCG-GAGA
65 TTCACAATCGAG-GA
* * * * *
1193387 TACTCTAACCCTGTTATTTCTGAGAGGATATTCTAACCCCGG-TTTGTTT-TCAAAACATCGATT
1 TACTCTAACCCCGTTATTTCTGAG-GGATACTCCAACCCAGGCTTTATTTCT-AAAACATCGATT
1193450 TT
64 TT
1193452 CCCCCATTAG
Statistics
Matches: 241, Mismatches: 45, Indels: 32
0.76 0.14 0.10
Matches are distributed among these distances:
77 4 0.02
78 62 0.26
79 169 0.70
80 6 0.02
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.34
Consensus pattern (78 bp):
TACTCTAACCCCGTTATTTCTGAGGGATACTCCAACCCAGGCTTTATTTCTAAAACATCGATTTT
TCACAATCGAGGA
Found at i:1194321 original size:175 final size:170
Alignment explanation
Indices: 1193953--1194333 Score: 430
Period size: 169 Copynumber: 2.2 Consensus size: 170
1193943 CCACTGTGCA
* * * *
1193953 GATTCAAGGCCTGCCACACTGGACTTAAAGGTGATGAGGATGAAGAGCGATAAAAGGACCAATAC
1 GATTCAAGGCCAGCCACATTGGACTTAAAGGTGAAGAGGATGAAAAGCGATAAAAGGACCAATAC
1194018 GTTGATTCACGGCCAACGATATTGGGTTCAAAGATGAGAAAAAGGATAAAAGAGCCAATATGCGG
66 GTTGATTCACGGCCAACGATATTGGGTTCAAAGATGAGAAAAAGGATAAAAGAGCCAATATGCGG
* * * *
1194083 CTAGCGATATTGGACTTAAAGATAAAGGTGCCAATGTGCT
131 CCAGCGACATTGAACTTAAAGATAAAGGTGCCAATATGCT
* * * * *
1194123 GATTCAAGGCCAGCGACATTGGACTTAAAGATGAAGATGA-GAAAAGTGATAAAGATG-CCAATA
1 GATTCAAGGCCAGCCACATTGGACTTAAAGGTGAAGAGGATGAAAAGCGATAAA-AGGACCAATA
* * * * **
1194186 TGTTGATTCACGGCCAACGATATTGGGCTT-AAAGATGATGAAAAAGGATGTCAATGTGCTGAT-
65 CGTTGATTCACGGCCAACGATATTGGG-TTCAAAGATGA-GAAAAAGGA--TAAAAGAGCCAATA
* *
1194249 T-CAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCGATATGCT
126 TGC--GGCCAGCGACATTGAACTTAAAGAT---AAAGGTGCCAATATGCT
* *
1194298 GATTCAAGGCCAGCTAGATTGGACTTAAAGGTGAAG
1 GATTCAAGGCCAGCCACATTGGACTTAAAGGTGAAG
1194334 GTGCCAATGT
Statistics
Matches: 177, Mismatches: 24, Indels: 15
0.82 0.11 0.07
Matches are distributed among these distances:
169 51 0.29
170 48 0.27
171 1 0.01
172 29 0.16
175 48 0.27
ACGTcount: A:0.36, C:0.15, G:0.27, T:0.22
Consensus pattern (170 bp):
GATTCAAGGCCAGCCACATTGGACTTAAAGGTGAAGAGGATGAAAAGCGATAAAAGGACCAATAC
GTTGATTCACGGCCAACGATATTGGGTTCAAAGATGAGAAAAAGGATAAAAGAGCCAATATGCGG
CCAGCGACATTGAACTTAAAGATAAAGGTGCCAATATGCT
Found at i:1194354 original size:49 final size:49
Alignment explanation
Indices: 1194237--1194943 Score: 958
Period size: 49 Copynumber: 14.5 Consensus size: 49
1194227 AAAAGGATGT
*
1194237 CAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGAT-G--AAGGTGC
* * * *
1194289 CGATATGCTGATTCAAGGCCAGCTAGATTGGACTTAAAGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
1194338 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
1194387 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
1194436 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * ** *
1194485 CAATGTGCTAAGTCAAGGTGAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1194534 CAATATGCTGATTCAAGGCCAGCGATATTGGACTT----A--AAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
1194577 CAATGTGCTGATTCAAGGCCAGCTACATTGGACCTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * *
1194626 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
1194675 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * * * *
1194724 CAATATGCTGATTCAAGGCCAGCGATATTGGACTTAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* *
1194773 CAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
* * *
1194822 CAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAATGGTGAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAA-GATGAAGGTGC
* * *
1194872 CAATGTGCTGAGTCAAGGCCAGCTACATTGAACTTAAAGATAAAGGTGC
1 CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
*
1194921 CAATATGCTGATTCAAGGCCAGC
1 CAATGTGCTGATTCAAGGCCAGC
1194944 CATATTGGGC
Statistics
Matches: 572, Mismatches: 76, Indels: 17
0.86 0.11 0.03
Matches are distributed among these distances:
43 38 0.07
45 1 0.00
47 1 0.00
49 452 0.79
50 43 0.08
51 1 0.00
52 36 0.06
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.24
Consensus pattern (49 bp):
CAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGC
Found at i:1194425 original size:98 final size:98
Alignment explanation
Indices: 1194228--1194961 Score: 1120
Period size: 98 Copynumber: 7.5 Consensus size: 98
1194218 AGATGATGAA
* * * * * *
1194228 AAAGGATGTCAATGTGCTGATTCAAGGCCAGCTACATTGAACTTAAAGATGGAAAAGGTGCCGAT
1 AAAGG-TGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGT-G--AAGGTGCCAAT
* * * *
1194293 ATGCTGATTCAAGGCCAGCTAGATTGGACTTAAAGGT
62 GTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
* * * * *
1194330 GAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGGTGCCAATGTGC
1194395 TGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
66 TGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
*
1194428 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGGTGCCAATGTGC
* **
1194493 TAAGTCAAGGTGAGCTACATTGGACTTAAAGAT
66 TGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
*
1194526 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTT--A----AAGGTGCCAATGTGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGGTGCCAATGTGC
* *
1194585 TGATTCAAGGCCAGCTACATTGGACCTAAAGAT
66 TGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
*
1194618 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGGTGCCAATGTGC
1194683 TGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
66 TGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
* *
1194716 AAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAATGGTGAAGGTGCCAATGTGC
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGGTGCCAATGTGC
1194781 TGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
66 TGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
1194814 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAATGGTGAAGGTGCCAATGTG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAA-GGTGAAGGTGCCAATGTG
*
1194879 CTGAGTCAAGGCCAGCTACATTGAACTTAAAGAT
65 CTGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
* *
1194913 AAAGGTGCCAATATGCTGATTCAAGGCCAGCCATATTGGGCTTAGAAGG
1 AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTA-AAGG
1194962 GTTGCCACCG
Statistics
Matches: 589, Mismatches: 35, Indels: 19
0.92 0.05 0.03
Matches are distributed among these distances:
92 85 0.14
98 361 0.61
99 95 0.16
100 3 0.01
101 41 0.07
102 4 0.01
ACGTcount: A:0.31, C:0.17, G:0.27, T:0.25
Consensus pattern (98 bp):
AAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAAAGGTGAAGGTGCCAATGTGC
TGAGTCAAGGCCAGCTACATTGGACTTAAAGAT
Found at i:1194799 original size:288 final size:289
Alignment explanation
Indices: 1194280--1194956 Score: 1113
Period size: 288 Copynumber: 2.3 Consensus size: 289
1194270 TTAAAGATGG
* * * * * *
1194280 AAAAGGTGCCGATATGCTGATTCAAGGCCAGCTAGATTGGACTTAAAGGTGAAGGTGCCAATGTG
1 AAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATG
* *
1194345 CTGAGTCAAGGCCAGCTACATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGC
66 CTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGC
*
1194410 TACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCTATATTGGACTTAATG
131 TACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAATG
**
1194475 GTGAAGGTGCCAATGTGCTAAGTCAAGGTGAGCTACATTGGACTTAAAGATAAAGGTGCCAATAT
196 GTGAAGGTGCCAATGTGCTAAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATAT
1194540 GCTGATTCAAGGCCAGCGATATTGGACTT
261 GCTGATTCAAGGCCAGCGATATTGGACTT
*
1194569 -AAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACCTAAAGATAAAGGTGCCAATATG
1 AAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATG
* *
1194633 CTGATTCAAGGCCAGCTATATTGGACTTAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGC
66 CTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGC
1194698 TACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAATG
131 TACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAATG
*
1194763 GTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATAT
196 GTGAAGGTGCCAATGTGCTAAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATAT
*
1194828 GCTGATTCAAGGCCAGCTATATTGGACTT
261 GCTGATTCAAGGCCAGCGATATTGGACTT
* *
1194857 AAATGGTGAAGGTGCCAATGTGCTGAGTCAAGGCCAGCTACATTGAACTTAAAGATAAAGGTGCC
1 -AA-----AAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCC
* *
1194922 AATATGCTGATTCAAGGCCAGCCATATTGGGCTTA
60 AATATGCTGATTCAAGGCCAGCTATATTGGACTTA
1194957 GAAGGGTTGC
Statistics
Matches: 360, Mismatches: 21, Indels: 8
0.93 0.05 0.02
Matches are distributed among these distances:
288 272 0.76
290 1 0.00
295 87 0.24
ACGTcount: A:0.31, C:0.18, G:0.27, T:0.25
Consensus pattern (289 bp):
AAAAGGTGCCAATGTGCTGATTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATATG
CTGATTCAAGGCCAGCTATATTGGACTTAAAGATGAAGGTGCCAATGTGCTGAGTCAAGGCCAGC
TACATTGGACTTAAAGATAAAGGTGCCAATATGCTGATTCAAGGCCAGCGATATTGGACTTAATG
GTGAAGGTGCCAATGTGCTAAGTCAAGGCCAGCTACATTGGACTTAAAGATAAAGGTGCCAATAT
GCTGATTCAAGGCCAGCGATATTGGACTT
Found at i:1195000 original size:33 final size:33
Alignment explanation
Indices: 1194956--1195060 Score: 162
Period size: 32 Copynumber: 3.2 Consensus size: 33
1194946 TATTGGGCTT
1194956 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTGG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTGG
*
1194989 AAGAA-GGTTGCCACCAACTTGTGTGGGCTTTGG
1 -AGAAGGGTTGCCACCGACTTGTGTGGGCTTTGG
*
1195022 -GAAGGGTTGCCACCGACTTGTGTGGGCTTTAG
1 AGAAGGGTTGCCACCGACTTGTGTGGGCTTTGG
1195054 A-AAGGGT
1 AGAAGGGT
1195061 GAAAGATGCC
Statistics
Matches: 66, Mismatches: 3, Indels: 6
0.88 0.04 0.08
Matches are distributed among these distances:
31 3 0.05
32 32 0.48
33 27 0.41
34 4 0.06
ACGTcount: A:0.19, C:0.17, G:0.37, T:0.27
Consensus pattern (33 bp):
AGAAGGGTTGCCACCGACTTGTGTGGGCTTTGG
Found at i:1195172 original size:34 final size:34
Alignment explanation
Indices: 1195062--1195440 Score: 408
Period size: 34 Copynumber: 11.4 Consensus size: 34
1195052 AGAAAGGGTG
* * *
1195062 AAAGA-TGCCACGAAGTTGTGGACTTAAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
*
1195095 CAAG-GTGCCACGGAGTTGTGGGCTTTAAAAGGGAAA
1 AAAGAGTGCCACGGAGTTGTGGGC-TTAAAA-GG-AA
*
1195131 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
*
1195165 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
* *
1195199 AAAGAGTGCCACGGAGTTGTGGACTTAGAAGGAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
*
1195233 AAAGAGTGCCACGGAGTTGTGGGCTTAGAAGG-A
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
* *
1195266 AAAGAGTGCCACGTAGTTGTGGGCTTTAAAGG-A
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
* * *
1195299 AAAGAGTGCCACGTAGTCGTGGACTTAAAA-G--
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
1195330 ---G-GTGCCACGGAGTTGTGGGCTTTGAAAAGGGAA
1 AAAGAGTGCCACGGAGTTGTGGGC-TT-AAAA-GGAA
*** *
1195363 AAAGAGTGCCATAAAGTTGTGGGCTTTAAAAAGAA
1 AAAGAGTGCCACGGAGTTGTGGGC-TTAAAAGGAA
* * *
1195398 AAAGTGTGCCACAGAGTTGTGGGCTTTAAA-GAA
1 AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
1195431 AAA-A-TGCCAC
1 AAAGAGTGCCAC
1195441 TAAGTCGTGG
Statistics
Matches: 305, Mismatches: 26, Indels: 32
0.84 0.07 0.09
Matches are distributed among these distances:
27 16 0.05
28 3 0.01
29 4 0.01
31 7 0.02
32 1 0.00
33 83 0.27
34 111 0.36
35 27 0.09
36 15 0.05
37 38 0.12
ACGTcount: A:0.34, C:0.13, G:0.33, T:0.20
Consensus pattern (34 bp):
AAAGAGTGCCACGGAGTTGTGGGCTTAAAAGGAA
Found at i:1195407 original size:35 final size:36
Alignment explanation
Indices: 1195325--1195434 Score: 127
Period size: 35 Copynumber: 3.1 Consensus size: 36
1195315 TCGTGGACTT
* ** *
1195325 AAAAGGGTGCCACGGAGTTGTGGGCTTTGAAAAGGGA
1 AAAAGAGTGCCACAAAGTTGTGGGCTTT-AAAAGAGA
*
1195362 AAAAGAGTGCCATAAAGTTGTGGGCTTTAAAA-AGA
1 AAAAGAGTGCCACAAAGTTGTGGGCTTTAAAAGAGA
* *
1195397 AAAAGTGTGCCACAGAGTTGTGGGCTTT-AAAGA-A
1 AAAAGAGTGCCACAAAGTTGTGGGCTTTAAAAGAGA
1195431 AAAA
1 AAAA
1195435 TGCCACTAAG
Statistics
Matches: 64, Mismatches: 8, Indels: 5
0.83 0.10 0.06
Matches are distributed among these distances:
34 8 0.12
35 28 0.44
36 4 0.06
37 24 0.38
ACGTcount: A:0.38, C:0.10, G:0.31, T:0.21
Consensus pattern (36 bp):
AAAAGAGTGCCACAAAGTTGTGGGCTTTAAAAGAGA
Found at i:1195466 original size:30 final size:30
Alignment explanation
Indices: 1195431--1195487 Score: 105
Period size: 30 Copynumber: 1.9 Consensus size: 30
1195421 CTTTAAAGAA
1195431 AAAATGCCACTAAGTCGTGGACTTTGAGAC
1 AAAATGCCACTAAGTCGTGGACTTTGAGAC
*
1195461 AAAATGCCACTGAGTCGTGGACTTTGA
1 AAAATGCCACTAAGTCGTGGACTTTGA
1195488 AAAGGTATTT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.32, C:0.19, G:0.25, T:0.25
Consensus pattern (30 bp):
AAAATGCCACTAAGTCGTGGACTTTGAGAC
Found at i:1196449 original size:13 final size:13
Alignment explanation
Indices: 1196427--1196482 Score: 67
Period size: 13 Copynumber: 4.2 Consensus size: 13
1196417 TGAAAAGGGG
*
1196427 TTTTTCCTCTTTT
1 TTTTTTCTCTTTT
1196440 TTTTTTCTCTTTT
1 TTTTTTCTCTTTT
*
1196453 TTTTTTCTTTTTT
1 TTTTTTCTCTTTT
*
1196466 TGTTTTGTTTCTTTT
1 T-TTTT-TCTCTTTT
1196481 TT
1 TT
1196483 GGAAAAGAAC
Statistics
Matches: 37, Mismatches: 4, Indels: 3
0.84 0.09 0.07
Matches are distributed among these distances:
13 25 0.68
14 5 0.14
15 7 0.19
ACGTcount: A:0.00, C:0.12, G:0.04, T:0.84
Consensus pattern (13 bp):
TTTTTTCTCTTTT
Found at i:1203750 original size:52 final size:51
Alignment explanation
Indices: 1203665--1203788 Score: 205
Period size: 52 Copynumber: 2.4 Consensus size: 51
1203655 ATATGAAAAG
* *
1203665 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAA
1 TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
1203716 TTTGCCTGCATGTATCGATACATTTTAA-AATGTATCGATACATCTGGGCAAA
1 -TTGCCTGCATGTATCGATACA-TTTAATAATGTATCGATACATCTGGGCAAA
1203768 TTGCCTGCATGTATCGATACA
1 TTGCCTGCATGTATCGATACA
1203789 AAGATCAGTG
Statistics
Matches: 69, Mismatches: 2, Indels: 3
0.93 0.03 0.04
Matches are distributed among these distances:
51 21 0.30
52 43 0.62
53 5 0.07
ACGTcount: A:0.29, C:0.18, G:0.19, T:0.35
Consensus pattern (51 bp):
TTGCCTGCATGTATCGATACATTTAATAATGTATCGATACATCTGGGCAAA
Found at i:1203801 original size:51 final size:50
Alignment explanation
Indices: 1203665--1203808 Score: 177
Period size: 52 Copynumber: 2.8 Consensus size: 50
1203655 ATATGAAAAG
* *
1203665 TTGCTTGCATGTATCGATACATTTAATAGTGTATCGATACATCTGGGCAAAT
1 TTGCCTGCATGTATCGATACA--AAATAGTGTATCGATACATCTGGGCAAAT
1203717 TTGCCTGCATGTATCGATACATTTTAAA-A-TGTATCGATACATCTGGGCAAA-
1 TTGCCTGCATGTATCGATACA----AAATAGTGTATCGATACATCTGGGCAAAT
1203768 TTGCCTGCATGTATCGATACAAAGATCAGTGTATCGATACA
1 TTGCCTGCATGTATCGATACAAA-AT-AGTGTATCGATACA
1203809 ATGTATCGAT
Statistics
Matches: 84, Mismatches: 2, Indels: 13
0.85 0.02 0.13
Matches are distributed among these distances:
47 2 0.02
48 1 0.01
50 1 0.01
51 33 0.39
52 42 0.50
53 1 0.01
54 4 0.05
ACGTcount: A:0.31, C:0.17, G:0.19, T:0.33
Consensus pattern (50 bp):
TTGCCTGCATGTATCGATACAAAATAGTGTATCGATACATCTGGGCAAAT
Found at i:1203815 original size:13 final size:13
Alignment explanation
Indices: 1203797--1203821 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1203787 CAAAGATCAG
1203797 TGTATCGATACAA
1 TGTATCGATACAA
1203810 TGTATCGATACA
1 TGTATCGATACA
1203822 TTTGAGTAAT
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:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:1203899 original size:33 final size:33
Alignment explanation
Indices: 1203862--1203928 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
1203852 AGTAGCTTAA
1203862 ATTGTATCGATACAAAAAAATATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
* ***
1203895 ATTGTATCGATACAACATTTTATGTATCGATAC
1 ATTGTATCGATACAAAAAAATATGTATCGATAC
1203928 A
1 A
1203929 AATCGTTGAA
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.40, C:0.13, G:0.12, T:0.34
Consensus pattern (33 bp):
ATTGTATCGATACAAAAAAATATGTATCGATAC
Found at i:1203902 original size:13 final size:13
Alignment explanation
Indices: 1203884--1203908 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
1203874 CAAAAAAATA
1203884 TGTATCGATACAT
1 TGTATCGATACAT
1203897 TGTATCGATACA
1 TGTATCGATACA
1203909 ACATTTTATG
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:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1205527 original size:79 final size:78
Alignment explanation
Indices: 1205422--1205803 Score: 294
Period size: 79 Copynumber: 4.8 Consensus size: 78
1205412 AAATTTCTAT
* *
1205422 AATCAGGGGTACTCTAACCCCGTTATTTCTGAGGAGATACTCCAACCCCAGTTTTTTTTTCAAAA
1 AATC-GGGATACTCTAACCCCGTTATTTCTGAGGAGATACTCCAACCCCAGGTTTTTTTTCAAAA
*
1205487 CACTAACTTTTCAC
65 CACTAATTTTTCAC
** * ** * ** *
1205501 AATCGAGGATACTCTAACCCTATTATTT-TCAAAAGGATACTCCAACCCTA-GCCTTATTTCTAA
1 AATCG-GGATACTCTAACCCCGTTATTTCTGAGGA-GATACTCCAACCCCAGGTTTTTTTTC-AA
* *
1205564 AACATTGATTTTTCAC
63 AACACTAATTTTTCAC
* * * * * *
1205580 AATCCGGGATACTCCAACCCCGTTATTTTTTAGGGGATACTCCAA-CCCTGATTTTATTTTCAAA
1 AAT-CGGGATACTCTAACCCCGTTATTTCTGAGGAGATACTCCAACCCCAGGTTTT-TTTTCAAA
*
1205644 ACACTGATTTTTCAC
64 ACACTAATTTTTCAC
* * * * ** * * *
1205659 CATCGAGGGTACTCCAACCCCATTATTTCCAAGG-GAATACTCTAA-CCCAGGCTTTATTTCTAA
1 AATCG-GGATACTCTAACCCCGTTATTTCTGAGGAG-ATACTCCAACCCCAGGTTTTTTTTC-AA
1205722 AACA-TCAATTTTTCAC
63 AACACT-AATTTTTCAC
* * * *
1205738 AATCGGAGATACTCTAACCCTGTTATTTCTGA-GAGGATATTCTAACCCC-GGTTTGTTTTCAAA
1 AATCGG-GATACTCTAACCCCGTTATTTCTGAGGA-GATACTCCAACCCCAGGTTTTTTTTCAAA
1205801 ACA
64 ACA
1205804 TCGATTTTCC
Statistics
Matches: 237, Mismatches: 51, Indels: 31
0.74 0.16 0.10
Matches are distributed among these distances:
78 28 0.12
79 197 0.83
80 12 0.05
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.33
Consensus pattern (78 bp):
AATCGGGATACTCTAACCCCGTTATTTCTGAGGAGATACTCCAACCCCAGGTTTTTTTTCAAAAC
ACTAATTTTTCAC
Found at i:1205719 original size:158 final size:157
Alignment explanation
Indices: 1205422--1205839 Score: 461
Period size: 158 Copynumber: 2.6 Consensus size: 157
1205412 AAATTTCTAT
* * * * *
1205422 AATCAGGGGTACTCTAACCCCGTTATTTCTGAGGAGATACTCCAACCCCAGTTTTTTTTTCAAAA
1 AATCCGGGATACTCTAACCCCGTTATTTCTGAGGGGATACTCCAACCCGA-TTTTATTTTCAAAA
* * * * *
1205487 CACTAACTTTTCACAATCGAGGATACTCTAACCCTATTATTTTCAAAAGGATACTCCAACCCTAG
65 CACTGATTTTTCACCATCGAGGATACTCCAACCCCATTATTTTCAAAAGGATACTCCAACCCTAG
**
1205552 CCTTATTTCTAAAACATTGATTTTTCAC
130 CCTTATTTCTAAAACATCAATTTTTCAC
* * *
1205580 AATCCGGGATACTCCAACCCCGTTATTTTTTAGGGGATACTCCAACCCTGATTTTATTTTCAAAA
1 AATCCGGGATACTCTAACCCCGTTATTTCTGAGGGGATACTCCAACCC-GATTTTATTTTCAAAA
* * * *
1205645 CACTGATTTTTCACCATCGAGGGTACTCCAACCCCATTA-TTTCCAAGGGAATACTCTAACCC-A
65 CACTGATTTTTCACCATCGAGGATACTCCAACCCCATTATTTTCAAAAGG-ATACTCCAACCCTA
*
1205708 GGCTTTATTTCTAAAACATCAATTTTTCAC
129 -GCCTTATTTCTAAAACATCAATTTTTCAC
* * * * * *
1205738 AAT-CGGAGATACTCTAACCCTGTTATTTCTGAGAGGATATTCTAACCCCG-GTTTGTTTTCAAA
1 AATCCGG-GATACTCTAACCCCGTTATTTCTGAGGGGATACTCCAA-CCCGATTTTATTTTCAAA
* * *
1205801 ACA-TCGATTTTCCCCCAT-TAGAGATACTCCAACCCCATT
64 ACACT-GATTTTTCACCATCGAG-GATACTCCAACCCCATT
1205840 TTTATCTCCA
Statistics
Matches: 220, Mismatches: 33, Indels: 15
0.82 0.12 0.06
Matches are distributed among these distances:
156 3 0.01
157 53 0.24
158 160 0.73
159 4 0.02
ACGTcount: A:0.29, C:0.26, G:0.12, T:0.33
Consensus pattern (157 bp):
AATCCGGGATACTCTAACCCCGTTATTTCTGAGGGGATACTCCAACCCGATTTTATTTTCAAAAC
ACTGATTTTTCACCATCGAGGATACTCCAACCCCATTATTTTCAAAAGGATACTCCAACCCTAGC
CTTATTTCTAAAACATCAATTTTTCAC
Found at i:1211763 original size:14 final size:14
Alignment explanation
Indices: 1211742--1211787 Score: 53
Period size: 14 Copynumber: 3.5 Consensus size: 14
1211732 TCATATAAAA
1211742 TTTT-ATGCATAAT
1 TTTTAATGCATAAT
**
1211755 TTTTAATGC--CCT
1 TTTTAATGCATAAT
1211767 TTTTAATGCATAAT
1 TTTTAATGCATAAT
1211781 TTTTAAT
1 TTTTAAT
1211788 TTTTACAATT
Statistics
Matches: 26, Mismatches: 4, Indels: 5
0.74 0.11 0.14
Matches are distributed among these distances:
12 10 0.38
13 4 0.15
14 12 0.46
ACGTcount: A:0.28, C:0.11, G:0.07, T:0.54
Consensus pattern (14 bp):
TTTTAATGCATAAT
Found at i:1212976 original size:10 final size:10
Alignment explanation
Indices: 1212947--1212984 Score: 51
Period size: 10 Copynumber: 3.8 Consensus size: 10
1212937 ATTTAGCTTT
1212947 GACATTTTTA
1 GACATTTTTA
*
1212957 AACATGTTTTA
1 GACAT-TTTTA
1212968 GACATTTTTA
1 GACATTTTTA
1212978 -ACATTTT
1 GACATTTT
1212985 AAGGATCAAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
9 7 0.28
10 9 0.36
11 9 0.36
ACGTcount: A:0.32, C:0.11, G:0.08, T:0.50
Consensus pattern (10 bp):
GACATTTTTA
Found at i:1216195 original size:2 final size:2
Alignment explanation
Indices: 1216188--1216214 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
1216178 TACTTCCTTT
1216188 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA T
1216215 TTGTTTGCAG
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:1217405 original size:23 final size:23
Alignment explanation
Indices: 1217365--1217419 Score: 60
Period size: 23 Copynumber: 2.3 Consensus size: 23
1217355 AGCATGAAAT
1217365 GAAAAGAAAAAGTGAAAAT-AGTAA
1 GAAAA-AAAAAGTGAAAATGAG-AA
1217389 GAAAAAAAAA-TGAAAAATGAGAA
1 GAAAAAAAAAGTG-AAAATGAGAA
*
1217412 GGAAAAAA
1 GAAAAAAA
1217420 GGCAAAGAAA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
22 2 0.07
23 19 0.68
24 7 0.25
ACGTcount: A:0.71, C:0.00, G:0.20, T:0.09
Consensus pattern (23 bp):
GAAAAAAAAAGTGAAAATGAGAA
Found at i:1217869 original size:139 final size:141
Alignment explanation
Indices: 1217700--1217983 Score: 396
Period size: 139 Copynumber: 2.0 Consensus size: 141
1217690 AAAGGGAAAG
* * * *
1217700 AAAAAAGCAAAAAAATGGCAAGAATAAAGCTCTAGGGTGAAAATCCAAAAAATTAGGTAGTCTAG
1 AAAAAAGCAAAAAAATGGAAAAAAAAAAGCTCTAGGGTGAAAATCCAAAAAATTAAGTAGTCTAG
* *
1217765 AGCAACA-CAAAAAATATTTCAGTATTGTTTATGAAGACTATTGAGA-T-CAAGTAGAAAATTAA
66 AGCAA-AGCAAAAAATATTTCAGTATTATTTATGAAGACTATTAAGATTGCAAGTAGAAAATT-A
*
1217827 TTTTAAGAAGTCT
129 TTTGAAGAAGTCT
* *
1217840 AAAAAAGCAAAAAAAT-GAAAAAAAAAAGCTCTAGGGTGAAAATCCAAAAAATTAAGTGGTTTAG
1 AAAAAAGCAAAAAAATGGAAAAAAAAAAGCTCTAGGGTGAAAATCCAAAAAATTAAGTAGTCTAG
* *
1217904 AGCAAAGCAAAAAATTTTTTAGTATTATTTATGAAGACTATTAAGATCTTGGCAAGTAGAAAATT
66 AGCAAAGCAAAAAATATTTCAGTATTATTTATGAAGACTATTAAGA--TT-GCAAGTAGAAAATT
1217969 ATTTGAAGAAGTCT
128 ATTTGAAGAAGTCT
1217983 A
1 A
1217984 GGGATTCAAG
Statistics
Matches: 127, Mismatches: 11, Indels: 9
0.86 0.07 0.06
Matches are distributed among these distances:
138 1 0.01
139 82 0.65
140 16 0.13
142 1 0.01
143 14 0.11
144 13 0.10
ACGTcount: A:0.49, C:0.09, G:0.17, T:0.26
Consensus pattern (141 bp):
AAAAAAGCAAAAAAATGGAAAAAAAAAAGCTCTAGGGTGAAAATCCAAAAAATTAAGTAGTCTAG
AGCAAAGCAAAAAATATTTCAGTATTATTTATGAAGACTATTAAGATTGCAAGTAGAAAATTATT
TGAAGAAGTCT
Found at i:1218657 original size:13 final size:13
Alignment explanation
Indices: 1218639--1218665 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1218629 ACATTATGCT
1218639 TTGTATCGATACA
1 TTGTATCGATACA
1218652 TTGTATCGATACA
1 TTGTATCGATACA
1218665 T
1 T
1218666 GGACAATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1218740 original size:20 final size:20
Alignment explanation
Indices: 1218715--1218768 Score: 83
Period size: 20 Copynumber: 2.7 Consensus size: 20
1218705 CTACCACTGT
*
1218715 TTGTATCGATACATGGT-ACA
1 TTGTATCGATACATGATGA-A
1218735 TTGTATCGATACATGATGAA
1 TTGTATCGATACATGATGAA
1218755 TTGTATCGATACAT
1 TTGTATCGATACAT
1218769 TACTTGTAAC
Statistics
Matches: 32, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
20 31 0.97
21 1 0.03
ACGTcount: A:0.31, C:0.13, G:0.19, T:0.37
Consensus pattern (20 bp):
TTGTATCGATACATGATGAA
Found at i:1220700 original size:66 final size:65
Alignment explanation
Indices: 1220545--1221051 Score: 224
Period size: 66 Copynumber: 7.8 Consensus size: 65
1220535 CTCTTTTTTT
* * * * * * *
1220545 ACTTAGGTTTCACCATGGTCA-CCTTTTTTTGTTCATATGGTTACATCTTAGG-CAA-CTGGTTT
1 ACTTAGGTTTCACCCTAGTTACCCTTTGTTGGTTCATATGGTTTCATC-TCGGCCAACCT--TTT
1220607 TCG
63 TCG
* * * * ** * *
1220610 ACTTAGGTTTCATCTTGGTCACCCTTTGTTGGTTTGTATGGTTTTATCTTGGCCAATTCC-TTTT
1 ACTTAGGTTTCACCCTAGTTACCCTTTGTTGGTTCATATGGTTTCATCTCGGCCAA--CCTTTTT
1220674 CG
64 CG
* * * *
1220676 ACTTAGGTTTTACCCTAGTTACCCTTAGTTGGTTCATATGGTTTCATCTCGGTCAACCTTTTTTT
1 ACTTAGGTTTCACCCTAGTTACCCTTTGTTGGTTCATATGGTTTCATCTCGGCCAACC-TTTTTC
1220741 G
65 G
* * * * * **
1220742 ACTTAAGTTTCACCCTATTTACCCTTTTTTAGTTCATATGGTTTC-TCCCGATCAACTCTTTTTC
1 ACTTAGGTTTCACCCTAGTTACCCTTTGTTGGTTCATATGGTTTCATCTCGGCCAAC-CTTTTTC
*
1220806 A
65 G
* * ** * ** * **
1220807 AGTTAGATTTTGCCTTAGCCA-CTTTTGTTGGTTCATATGGTTTCATCTCAACCAACTCATTTTT
1 ACTTAGGTTTCACCCTAGTTACCCTTTGTTGGTTCATATGGTTTCATCTCGGCCAAC-C-TTTTT
1220871 -G
64 CG
* * * * * ** * *
1220872 ACTCAGGTTTCACCTTGGTCA-CCTTAGTTCTTTCATATTGTTTCA-CCCTGGCCAACCTATTTT
1 ACTTAGGTTTCACCCTAGTTACCCTTTGTTGGTTCATATGGTTTCATCTC-GGCCAACCT-TTTT
*
1220935 CA
64 CG
** ** ** * * * * *
1220937 ACTTATATTTTGCTTTGGTTATCCTTTATTGGTTCGTATGGTTTCTTC-CTGGCCAACTCTTTTT
1 ACTTAGGTTTCACCCTAGTTACCCTTTGTTGGTTCATATGGTTTCATCTC-GGCCAAC-CTTTTT
1221001 CG
64 CG
* ** * * * ** *
1221003 ATTTAGGTTTTGCCCTGGTCACCTTTTGTTGACTCTTATGGTTTCATCT
1 ACTTAGGTTTCACCCTAGTTACCCTTTGTTGGTTCATATGGTTTCATCT
1221052 TAGTCAACCG
Statistics
Matches: 334, Mismatches: 91, Indels: 32
0.73 0.20 0.07
Matches are distributed among these distances:
63 1 0.00
64 29 0.09
65 110 0.33
66 190 0.57
67 3 0.01
69 1 0.00
ACGTcount: A:0.16, C:0.22, G:0.16, T:0.46
Consensus pattern (65 bp):
ACTTAGGTTTCACCCTAGTTACCCTTTGTTGGTTCATATGGTTTCATCTCGGCCAACCTTTTTCG
Found at i:1221125 original size:41 final size:41
Alignment explanation
Indices: 1221030--1221162 Score: 128
Period size: 41 Copynumber: 3.2 Consensus size: 41
1221020 GTCACCTTTT
* * *
1221030 GTTGACTCT-TATGGTTTCATCTTAGTCAACCGCTCTAAGTC
1 GTTGACT-TGTATGGTTTCATGTTAGTCAACCTCTCTAACTC
* * ** * *
1221071 ATTAACTCATATGGTTTCATGTTGGTCAACCTTTCTAACTC
1 GTTGACTTGTATGGTTTCATGTTAGTCAACCTCTCTAACTC
*
1221112 GTTGACTTGTATGGTTT--TGTACTAGTCAACCTCTCTAACTT
1 GTTGACTTGTATGGTTTCATGT--TAGTCAACCTCTCTAACTC
1221153 GTTGACTTGT
1 GTTGACTTGT
1221163 GTAGACACCT
Statistics
Matches: 74, Mismatches: 15, Indels: 6
0.78 0.16 0.06
Matches are distributed among these distances:
39 3 0.04
41 71 0.96
ACGTcount: A:0.20, C:0.21, G:0.17, T:0.42
Consensus pattern (41 bp):
GTTGACTTGTATGGTTTCATGTTAGTCAACCTCTCTAACTC
Found at i:1224928 original size:39 final size:39
Alignment explanation
Indices: 1224883--1225032 Score: 153
Period size: 39 Copynumber: 3.8 Consensus size: 39
1224873 TTTTGTCCCA
* *
1224883 GTCAACCTTTAAACTTGTTGCCTTGTAGTTTTCATCC-G
1 GTCAACCCTTAAACTTGTTGACTTGTAGTTTTCATCCTG
* * * *
1224921 AATCAACCGCTTAAACTCGTTGACTTGTAGGTTT-GTCCTG
1 -GTCAACC-CTTAAACTTGTTGACTTGTAGTTTTCATCCTG
*
1224961 GTCAACCCTTAAACTTGTTAACTTGTA-TATTTCATCCTG
1 GTCAACCCTTAAACTTGTTGACTTGTAGT-TTTCATCCTG
* * *
1225000 GTCAACCTTTAAACTTATTGACTTTTAAGTTTT
1 GTCAACCCTTAAACTTGTTGACTTGT-AGTTTT
1225033 GTCCAGTTAA
Statistics
Matches: 90, Mismatches: 15, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
38 21 0.23
39 42 0.47
40 26 0.29
41 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.14, T:0.41
Consensus pattern (39 bp):
GTCAACCCTTAAACTTGTTGACTTGTAGTTTTCATCCTG
Found at i:1224958 original size:78 final size:78
Alignment explanation
Indices: 1224874--1225053 Score: 188
Period size: 78 Copynumber: 2.3 Consensus size: 78
1224864 TATTGCAAGT
**
1224874 TTTGTCCCAGTCAACCTTTAAACTTGTTGCCTTGTAGT-TTTCATCC-GAATCAACCGCTTAAAC
1 TTTGTCCCAGTCAACCTTTAAACTTGTTAACTTGTA-TATTTCATCCTG-ATCAACC-CTTAAAC
*
1224937 TCGTTGACTTGT-AGG
63 TCATTGACTTGTAAGG
** * * * *
1224952 TTTGTCCTGGTCAACCCTTAAACTTGTTAACTTGTATATTTCATCCTGGTCAACCTTTAAACTTA
1 TTTGTCCCAGTCAACCTTTAAACTTGTTAACTTGTATATTTCATCCTGATCAACCCTTAAACTCA
* *
1225017 TTGACTTTTAAGT
66 TTGACTTGTAAGG
*
1225030 TTTGT-CCAGTTAACCCTTTAAACT
1 TTTGTCCCAGTCAA-CCTTTAAACT
1225054 AGTCATCAAT
Statistics
Matches: 83, Mismatches: 15, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
77 21 0.25
78 61 0.73
79 1 0.01
ACGTcount: A:0.23, C:0.23, G:0.13, T:0.41
Consensus pattern (78 bp):
TTTGTCCCAGTCAACCTTTAAACTTGTTAACTTGTATATTTCATCCTGATCAACCCTTAAACTCA
TTGACTTGTAAGG
Found at i:1225356 original size:80 final size:79
Alignment explanation
Indices: 1225135--1225439 Score: 285
Period size: 80 Copynumber: 3.8 Consensus size: 79
1225125 AATCAACCCC
* ** * *
1225135 TTTTATCCGTTGACTCGTATGATTTCAT-TCCGATCAACCTTTTAAACTTGTTAACTTGTAAGTT
1 TTTTATCCGTTGACTCATATGATTTCATCTTAG-TCAACC-TTTAAACTTGTTGACTTGTAGGTT
* * *
1225199 TTATCCCGGTAAATCT
64 TTATCTCGGTCAACCT
* * *
1225215 TTCTTATCTGTTGACTCATATCACTTT-ATC-TAGTCAACCCTTAAACTTGTTGACTTGTAGGTT
1 TT-TTATCCGTTGACTCATATGA-TTTCATCTTAGTCAACCTTTAAACTTGTTGACTTGTAGGTT
1225278 TTATCTCGGTCAACCT
64 TTATCTCGGTCAACCT
* ** *
1225294 TTTTCATCCGTTGACTCATATGATTTCATCTTTGTCAGTCTTTAAACTTGTTGACTTCTAGGTTT
1 TTTT-ATCCGTTGACTCATATGATTTCATCTTAGTCAACCTTTAAACTTGTTGACTTGTAGGTTT
* *
1225359 TGTCTCAGTCAACCTT
65 TATCTCGGTCAACC-T
* * * ** * * *
1225375 TTTTATCTGTTGACTCATAAGGTTTCATC-CCGATCAACCTTTTAAATTTATTGACCTGTAGGTT
1 TTTTATCCGTTGACTCATATGATTTCATCTTAG-TCAACC-TTTAAACTTGTTGACTTGTAGGTT
1225439 T
64 T
1225440 CATATTAATC
Statistics
Matches: 185, Mismatches: 31, Indels: 17
0.79 0.13 0.07
Matches are distributed among these distances:
78 5 0.03
79 56 0.30
80 75 0.41
81 46 0.25
82 3 0.02
ACGTcount: A:0.22, C:0.21, G:0.13, T:0.45
Consensus pattern (79 bp):
TTTTATCCGTTGACTCATATGATTTCATCTTAGTCAACCTTTAAACTTGTTGACTTGTAGGTTTT
ATCTCGGTCAACCT
Found at i:1227888 original size:21 final size:21
Alignment explanation
Indices: 1227862--1227901 Score: 62
Period size: 21 Copynumber: 1.9 Consensus size: 21
1227852 CATGTGAGGA
*
1227862 ATGTTTCATACATTTTTAAAC
1 ATGTTTCAAACATTTTTAAAC
*
1227883 ATGTTTTAAACATTTTTAA
1 ATGTTTCAAACATTTTTAA
1227902 CATCTTAAGG
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.35, C:0.10, G:0.05, T:0.50
Consensus pattern (21 bp):
ATGTTTCAAACATTTTTAAAC
Found at i:1227899 original size:10 final size:10
Alignment explanation
Indices: 1227871--1227901 Score: 53
Period size: 10 Copynumber: 3.0 Consensus size: 10
1227861 AATGTTTCAT
1227871 ACATTTTTAA
1 ACATTTTTAA
1227881 ACATGTTTTAA
1 ACAT-TTTTAA
1227892 ACATTTTTAA
1 ACATTTTTAA
1227902 CATCTTAAGG
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
10 10 0.50
11 10 0.50
ACGTcount: A:0.39, C:0.10, G:0.03, T:0.48
Consensus pattern (10 bp):
ACATTTTTAA
Found at i:1228186 original size:19 final size:20
Alignment explanation
Indices: 1228151--1228190 Score: 64
Period size: 19 Copynumber: 2.0 Consensus size: 20
1228141 TGTATTTAGC
1228151 TTAGGCAATTTTAAACATTT
1 TTAGGCAATTTTAAACATTT
*
1228171 TTAGGC-ATTTTTAACATTT
1 TTAGGCAATTTTAAACATTT
1228190 T
1 T
1228191 AAAGACCAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 13 0.68
20 6 0.32
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (20 bp):
TTAGGCAATTTTAAACATTT
Found at i:1230949 original size:13 final size:13
Alignment explanation
Indices: 1230931--1230957 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
1230921 ACATTATGCT
1230931 TTGTATCGATACA
1 TTGTATCGATACA
1230944 TTGTATCGATACA
1 TTGTATCGATACA
1230957 T
1 T
1230958 CTTCATTGTA
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.30, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:1230987 original size:20 final size:19
Alignment explanation
Indices: 1230942--1230996 Score: 85
Period size: 19 Copynumber: 2.8 Consensus size: 19
1230932 TGTATCGATA
1230942 CATTGTATCGATACATCTT
1 CATTGTATCGATACATCTT
1230961 CATTGTATCGATACATAC-T
1 CATTGTATCGATACAT-CTT
1230980 CAATTGTATCGATACAT
1 C-ATTGTATCGATACAT
1230997 GAAACTGGTA
Statistics
Matches: 34, Mismatches: 0, Indels: 3
0.92 0.00 0.08
Matches are distributed among these distances:
19 18 0.53
20 16 0.47
ACGTcount: A:0.31, C:0.20, G:0.11, T:0.38
Consensus pattern (19 bp):
CATTGTATCGATACATCTT
Found at i:1235779 original size:16 final size:16
Alignment explanation
Indices: 1235755--1235785 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
1235745 AAAGGCTTTC
*
1235755 AAAATTTTTAATAGAA
1 AAAAGTTTTAATAGAA
1235771 AAAAGTTTTAATAGA
1 AAAAGTTTTAATAGA
1235786 GGAAATGTTG
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:0.55, C:0.00, G:0.10, T:0.35
Consensus pattern (16 bp):
AAAAGTTTTAATAGAA
Found at i:1245475 original size:17 final size:17
Alignment explanation
Indices: 1245453--1245486 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
1245443 CATTTGGCAA
1245453 AGGGGGAGAAATTATTT
1 AGGGGGAGAAATTATTT
1245470 AGGGGGAGAAATTATTT
1 AGGGGGAGAAATTATTT
1245487 GATAATAAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.35, C:0.00, G:0.35, T:0.29
Consensus pattern (17 bp):
AGGGGGAGAAATTATTT
Found at i:1250618 original size:168 final size:168
Alignment explanation
Indices: 1250332--1250645 Score: 504
Period size: 168 Copynumber: 1.9 Consensus size: 168
1250322 AATAGGATGC
* * * * * *
1250332 ATGGAATTTGATATGACCATGTTTGAGCAAAGAAAGACATGCTGAGATGTTCAAGACAGCATTTT
1 ATGGAAGTTGATATAACCATGTTTGAGCAAAGAAAAAAATGCTAAGATGTTCAAGACAACATTTT
*
1250397 TATGCTATGAAACTCATTAAAATGCAATGAAATGCACCATTATGTTCAAAAACATGCACAAATAT
66 TATGCTATGAAACTCATTAAAATGCAATGAAATGCACCAATATGTTCAAAAACATGCACAAATAT
1250462 GGTGGATAAGACATGTCAAAAACATGCACTAATATGTT
131 GGTGGATAAGACATGTCAAAAACATGCACTAATATGTT
*
1250500 ATGGAAGTTGATATAACCATGTTTGAGCAAAGAAGAAAAATGTTAAGAT-TTCAAGACAACATTT
1 ATGGAAGTTGATATAACCATGTTTGAGCAAAGAA-AAAAATGCTAAGATGTTCAAGACAACATTT
** *
1250564 TTATGCTATGAAACTCATTAAAATGCAATGAAATGCATGAATATGTTTAAAAACATGCACAAATA
65 TTATGCTATGAAACTCATTAAAATGCAATGAAATGCACCAATATGTTCAAAAACATGCACAAATA
*
1250629 TGGTGGATGAGACATGT
130 TGGTGGATAAGACATGT
1250646 GAAAGATGCA
Statistics
Matches: 133, Mismatches: 12, Indels: 2
0.90 0.08 0.01
Matches are distributed among these distances:
168 123 0.92
169 10 0.08
ACGTcount: A:0.41, C:0.12, G:0.18, T:0.28
Consensus pattern (168 bp):
ATGGAAGTTGATATAACCATGTTTGAGCAAAGAAAAAAATGCTAAGATGTTCAAGACAACATTTT
TATGCTATGAAACTCATTAAAATGCAATGAAATGCACCAATATGTTCAAAAACATGCACAAATAT
GGTGGATAAGACATGTCAAAAACATGCACTAATATGTT
Found at i:1254779 original size:52 final size:52
Alignment explanation
Indices: 1254701--1254851 Score: 248
Period size: 52 Copynumber: 2.9 Consensus size: 52
1254691 CGAAATATGA
1254701 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
*
1254753 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCAATACATCTGGGC
1 AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
* * * *
1254805 AAATTTGCTTGCATGTATCGATACCTTTGAGTAATGTATCGATACAT
1 AAATTTGCCTGCATGTATCGATACATTTCA-TAGTGTATCGATACAT
1254852 TTTTTGGCAG
Statistics
Matches: 92, Mismatches: 6, Indels: 1
0.93 0.06 0.01
Matches are distributed among these distances:
52 78 0.85
53 14 0.15
ACGTcount: A:0.28, C:0.18, G:0.18, T:0.36
Consensus pattern (52 bp):
AAATTTGCCTGCATGTATCGATACATTTCATAGTGTATCGATACATCTGGGC
Found at i:1254896 original size:19 final size:18
Alignment explanation
Indices: 1254872--1254968 Score: 88
Period size: 19 Copynumber: 5.8 Consensus size: 18
1254862 TAGCTTACAT
1254872 TGTATCGATACAAAACTTA
1 TGTATCGATAC-AAACTTA
1254891 TGTATCGATAC--A--T-
1 TGTATCGATACAAACTTA
1254904 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
*
1254923 TGTATCGGTAC--A--T-
1 TGTATCGATACAAACTTA
1254936 TGTATCGATACAACACTTA
1 TGTATCGATACAA-ACTTA
1254955 TGTATCGATACAAA
1 TGTATCGATACAAA
1254969 TCATTGAAAT
Statistics
Matches: 64, Mismatches: 2, Indels: 25
0.70 0.02 0.27
Matches are distributed among these distances:
13 21 0.33
14 2 0.03
16 4 0.06
18 3 0.05
19 34 0.53
ACGTcount: A:0.36, C:0.18, G:0.13, T:0.33
Consensus pattern (18 bp):
TGTATCGATACAAACTTA
Found at i:1254908 original size:32 final size:32
Alignment explanation
Indices: 1254867--1254966 Score: 182
Period size: 32 Copynumber: 3.1 Consensus size: 32
1254857 GGCAGTAGCT
*
1254867 TACATTGTATCGATACAAAACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
*
1254899 TACATTGTATCGATACAACACTTATGTATCGG
1 TACATTGTATCGATACAACACTTATGTATCGA
1254931 TACATTGTATCGATACAACACTTATGTATCGA
1 TACATTGTATCGATACAACACTTATGTATCGA
1254963 TACA
1 TACA
1254967 AATCATTGAA
Statistics
Matches: 65, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
32 65 1.00
ACGTcount: A:0.35, C:0.18, G:0.13, T:0.34
Consensus pattern (32 bp):
TACATTGTATCGATACAACACTTATGTATCGA
Found at i:1254909 original size:13 final size:13
Alignment explanation
Indices: 1254891--1254947 Score: 51
Period size: 13 Copynumber: 3.9 Consensus size: 13
1254881 ACAAAACTTA
1254891 TGTATCGATACAT
1 TGTATCGATACAT
1254904 TGTATCGATACAACACTT
1 TGTATCGAT---ACA--T
*
1254922 ATGTATCGGTACAT
1 -TGTATCGATACAT
1254936 TGTATCGATACA
1 TGTATCGATACA
1254948 ACACTTATGT
Statistics
Matches: 36, Mismatches: 2, Indels: 12
0.72 0.04 0.24
Matches are distributed among these distances:
13 20 0.56
14 1 0.03
16 6 0.17
18 1 0.03
19 8 0.22
ACGTcount: A:0.32, C:0.18, G:0.16, T:0.35
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:1256530 original size:20 final size:20
Alignment explanation
Indices: 1256505--1256552 Score: 78
Period size: 20 Copynumber: 2.4 Consensus size: 20
1256495 GTTCCTATGC
* *
1256505 ATCGATAGTTTTCGTAATGT
1 ATCGATACTTTTCATAATGT
1256525 ATCGATACTTTTCATAATGT
1 ATCGATACTTTTCATAATGT
1256545 ATCGATAC
1 ATCGATAC
1256553 ATTGCTTTGA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.42
Consensus pattern (20 bp):
ATCGATACTTTTCATAATGT
Found at i:1256697 original size:19 final size:20
Alignment explanation
Indices: 1256654--1256700 Score: 69
Period size: 20 Copynumber: 2.4 Consensus size: 20
1256644 CTGCCAGTTT
1256654 CATGTATCGATACAATTGAG
1 CATGTATCGATACAATTGAG
* *
1256674 TATGTATTGATACAA-TGAG
1 CATGTATCGATACAATTGAG
1256693 CATGTATC
1 CATGTATC
1256701 AGTACAATGT
Statistics
Matches: 23, Mismatches: 4, Indels: 1
0.82 0.14 0.04
Matches are distributed among these distances:
19 10 0.43
20 13 0.57
ACGTcount: A:0.34, C:0.13, G:0.19, T:0.34
Consensus pattern (20 bp):
CATGTATCGATACAATTGAG
Found at i:1256706 original size:19 final size:19
Alignment explanation
Indices: 1256654--1256709 Score: 69
Period size: 19 Copynumber: 2.9 Consensus size: 19
1256644 CTGCCAGTTT
1256654 CATGTATCGATACAATTGAG
1 CATGTATCGATACAA-TGAG
* *
1256674 TATGTATTGATACAATGAG
1 CATGTATCGATACAATGAG
1256693 CATGTATC-AGTACAATG
1 CATGTATCGA-TACAATG
1256710 TATCGATACA
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
18 1 0.03
19 17 0.55
20 13 0.42
ACGTcount: A:0.36, C:0.12, G:0.20, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAG
Found at i:1258960 original size:13 final size:13
Alignment explanation
Indices: 1258942--1258972 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
1258932 CGTTGGGCAT
1258942 AATGTATCGATAC
1 AATGTATCGATAC
1258955 AATGTATCGATAC
1 AATGTATCGATAC
1258968 AATGT
1 AATGT
1258973 CCCTCGTATC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.39, C:0.13, G:0.16, T:0.32
Consensus pattern (13 bp):
AATGTATCGATAC
Found at i:1259060 original size:19 final size:19
Alignment explanation
Indices: 1259017--1259072 Score: 67
Period size: 19 Copynumber: 2.9 Consensus size: 19
1259007 CTGCCAGTTT
*
1259017 CATGTATCGATACAATTGAG
1 CATGTATCAATACAA-TGAG
* *
1259037 TATGTATTAATACAATGAG
1 CATGTATCAATACAATGAG
*
1259056 CATGTATCAGTACAATG
1 CATGTATCAATACAATG
1259073 TATCGATACA
Statistics
Matches: 30, Mismatches: 6, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
19 18 0.60
20 12 0.40
ACGTcount: A:0.38, C:0.12, G:0.18, T:0.32
Consensus pattern (19 bp):
CATGTATCAATACAATGAG
Found at i:1262932 original size:42 final size:41
Alignment explanation
Indices: 1262881--1263356 Score: 205
Period size: 42 Copynumber: 11.3 Consensus size: 41
1262871 AGCCAAAGAG
* *
1262881 AAAGAAGTCTCCCAGGTCTAAGTCGACGAGTAGACAAAGGAT
1 AAAGAAGTCTCCCAGGTCAAAGTCGACGAGCAGACAAAGG-T
* * *
1262923 AAAGTAGTCTCCCAGGTCAAAGTCGACGGGGAGACAAAGGGT
1 AAAGAAGTCTCCCAGGTCAAAGTCGACGAGCAGACAAA-GGT
* ** * **
1262965 AAAGAAATCTCCTGGGTCAAAGCCGACCTGCAGACAAAAGGT
1 AAAGAAGTCTCCCAGGTCAAAGTCGACGAGCAGAC-AAAGGT
* * ** * * *
1263007 GAAGGAGTCTCCCAGGTCAAAGTCGGTGGGCAAACAGAGGGT
1 AAAGAAGTCTCCCAGGTCAAAGTCGACGAGCAGACA-AAGGT
* * ** * * *
1263049 GAAGGAGTCTCTTAGGTCAAATTCGA-TAGGCAGACAGAGGGT
1 AAAGAAGTCTCCCAGGTCAAAGTCGACGA-GCAGACA-AAGGT
* * **** * *
1263091 GAAGGAGTCTTTTGGGTCAAAG-CTGA-TAGGCAGATAAAAGGT
1 AAAGAAGTCTCCCAGGTCAAAGTC-GACGA-GCAGA-CAAAGGT
* * * *
1263133 AAAGAAGTCTCCCAGGTCAAAGTCGA-TAGGCAAATGAAAGAT
1 AAAGAAGTCTCCCAGGTCAAAGTCGACGA-GCAGA-CAAAGGT
* * * * * *
1263175 AAATAAGTCTCCCAAGTCTAAGTCGATGGGCAGATGAAAGGT
1 AAAGAAGTCTCCCAGGTCAAAGTCGACGAGCAGA-CAAAGGT
*** * *
1263217 GAAA-AAGTCTCTTGGGTCAATGTCAACGAGCAGACAAAGAGT
1 -AAAGAAGTCTCCCAGGTCAAAGTCGACGAGCAGACAAAG-GT
* * * *
1263259 AAAAAAGTCTCCC-GGATCAAAGTCGATTG-GCAAATAAAGGGT
1 AAAGAAGTCTCCCAGG-TCAAAGTCGA-CGAGCAGACAAA-GGT
* * * *
1263301 AAA-AGAGTCTCTC-GAGTCAAAGTCGATGGGCAGACAAAAGAT
1 AAAGA-AGTCTCCCAG-GTCAAAGTCGACGAGCAGAC-AAAGGT
1263343 AAAGAAGTCTCCCA
1 AAAGAAGTCTCCCA
1263357 AGTCTAAGCG
Statistics
Matches: 340, Mismatches: 74, Indels: 39
0.75 0.16 0.09
Matches are distributed among these distances:
41 14 0.04
42 309 0.91
43 17 0.05
ACGTcount: A:0.37, C:0.17, G:0.28, T:0.18
Consensus pattern (41 bp):
AAAGAAGTCTCCCAGGTCAAAGTCGACGAGCAGACAAAGGT
Found at i:1263084 original size:126 final size:126
Alignment explanation
Indices: 1262881--1263166 Score: 295
Period size: 126 Copynumber: 2.3 Consensus size: 126
1262871 AGCCAAAGAG
* * * * * * * * **
1262881 AAAGAAGTCTCCCAGGTCTAAGTCGA-CGAGTAGACAAAGGATAAAGTAGTCTCCCAGGTCAAAG
1 AAAGAAGTCTCCCAGGTCAAAGTCGATAG-GCAAACAGAGGGTGAAGGAGTCTCTTAGGTCAAAG
* * **
1262945 TCGACGGGGAGACAAAGGGTAAAGAAATCTCCTGGGTCAAAGCCGACCTGCAGACAAAAGGT
65 TCGACAGGCAGACAAAGGGTAAAGAAATCTCCTGGGTCAAAGCCGACAGGCAGACAAAAGGT
* * * * *
1263007 GAAGGAGTCTCCCAGGTCAAAGTCGGTGGGCAAACAGAGGGTGAAGGAGTCTCTTAGGTCAAATT
1 AAAGAAGTCTCCCAGGTCAAAGTCGATAGGCAAACAGAGGGTGAAGGAGTCTCTTAGGTCAAAGT
* * * * * ** * * *
1263072 CGATAGGCAGACAGAGGGTGAAGGAGTCTTTTGGGTCAAAGCTGATAGGCAGATAAAAGGT
66 CGACAGGCAGACAAAGGGTAAAGAAATCTCCTGGGTCAAAGCCGACAGGCAGACAAAAGGT
1263133 AAAGAAGTCTCCCAGGTCAAAGTCGATAGGCAAA
1 AAAGAAGTCTCCCAGGTCAAAGTCGATAGGCAAA
1263167 TGAAAGATAA
Statistics
Matches: 127, Mismatches: 32, Indels: 2
0.79 0.20 0.01
Matches are distributed among these distances:
126 126 0.99
127 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.30, T:0.17
Consensus pattern (126 bp):
AAAGAAGTCTCCCAGGTCAAAGTCGATAGGCAAACAGAGGGTGAAGGAGTCTCTTAGGTCAAAGT
CGACAGGCAGACAAAGGGTAAAGAAATCTCCTGGGTCAAAGCCGACAGGCAGACAAAAGGT
Found at i:1263201 original size:126 final size:127
Alignment explanation
Indices: 1262916--1263353 Score: 312
Period size: 126 Copynumber: 3.5 Consensus size: 127
1262906 ACGAGTAGAC
* * * * * *
1262916 AAAGGAT-AAAGTAGTCTCCCAGGTCAAAGTCGACGGGGAGACA-AAGGGT-AAAGAAATCTCCT
1 AAAGGATAAAAG-AGTCTCCCAAGTCAAAGTCGATGGGCAGACAGAAAGGTGAAA-AAGTCTCTT
* * ** * ** * *
1262978 GGGTCAAAGCCGACCTGCAGACAAAAG-GTGAAGGAGTCTCCCAGG-TCAAAGTCGGTGGGCAAA
64 GGGTCAAAGTCAACGAGCAGA-AAAAGAGTAAAAAAGTCTCCC-GGATCAAAGTCGATAGGCAAA
*
1263041 C
127 T
* * * * ** * * * * ** *
1263042 AGAGGGTGAAGGAGTCTCTTAGGTCAAATTCGATAGGCAGACAG-AGGGTGAAGGAGTCTTTTGG
1 AAAGGATAAAAGAGTCTCCCAAGTCAAAGTCGATGGGCAGACAGAAAGGTGAAAAAGTCTCTTGG
* *
1263106 GTCAAAGCTGATA-G-GCAGATAAAAG-GTAAAGAAGTCTCCCAGG-TCAAAGTCGATAGGCAAA
66 GTCAAAG-TCA-ACGAGCAGA-AAAAGAGTAAAAAAGTCTCCC-GGATCAAAGTCGATAGGCAAA
1263167 T
127 T
* *
1263168 GAAA-GATAAATA-AGTCTCCCAAGTCTAAGTCGATGGGCAGA-TGAAAGGTGAAAAAGTCTCTT
1 -AAAGGATAAA-AGAGTCTCCCAAGTCAAAGTCGATGGGCAGACAGAAAGGTGAAAAAGTCTCTT
* * *
1263230 GGGTCAATGTCAACGAGCAGACAAAGAGTAAAAAAGTCTCCCGGATCAAAGTCGATTGGCAAAT
64 GGGTCAAAGTCAACGAGCAGAAAAAGAGTAAAAAAGTCTCCCGGATCAAAGTCGATAGGCAAAT
* * * *
1263294 AAAGGGTAAAAGAGTCTCTCGAGTCAAAGTCGATGGGCAGACA-AAAGAT-AAAGAAGTCTC
1 AAAGGATAAAAGAGTCTCCCAAGTCAAAGTCGATGGGCAGACAGAAAGGTGAAA-AAGTCTC
1263354 CCAAGTCTAA
Statistics
Matches: 246, Mismatches: 50, Indels: 32
0.75 0.15 0.10
Matches are distributed among these distances:
124 1 0.00
125 17 0.07
126 220 0.89
127 7 0.03
128 1 0.00
ACGTcount: A:0.37, C:0.17, G:0.29, T:0.18
Consensus pattern (127 bp):
AAAGGATAAAAGAGTCTCCCAAGTCAAAGTCGATGGGCAGACAGAAAGGTGAAAAAGTCTCTTGG
GTCAAAGTCAACGAGCAGAAAAAGAGTAAAAAAGTCTCCCGGATCAAAGTCGATAGGCAAAT
Found at i:1263207 original size:84 final size:81
Alignment explanation
Indices: 1263119--1263382 Score: 241
Period size: 84 Copynumber: 3.1 Consensus size: 81
1263109 AAAGCTGATA
* *
1263119 GGCAGATAAAAGGTAAAGAAGTCTCCCAGGTCAAAGTCGATAGGCA-AATGAAAGATAAATAAGT
1 GGCAGATAAAAGGTAAA-AAGTCTCTC-GGTCAAAGTCGATAGGCAGAA--AAAGATAAAAAAGT
1263183 CTCCCAAGTCTAAGTCGATG
62 CTCCCAAGTCTAAGTCGATG
* * * *
1263203 GGCAGATGAAAGGTGAAAAAGTCTCTTGGGTCAATGTC-A-ACGAGCAGACAAAGAGTAAAAAAG
1 GGCAGATAAAAGGT-AAAAAGTCTC-TCGGTCAAAGTCGATA-G-GCAGAAAAAGA-TAAAAAAG
* * *
1263266 TCTCCC-GGATCAAAGTCGATT
61 TCTCCCAAG-TCTAAGTCGATG
* * * *
1263287 GGCAAATAAAGGGTAAAAGAGTCTCTCGAGTCAAAGTCGATGGGCAGACAAAAGATAAAGAAGTC
1 GGCAGATAAAAGGTAAAA-AGTCTCTCG-GTCAAAGTCGATAGGCAGA-AAAAGATAAAAAAGTC
1263352 TCCCAAGTCTAAG-CGAATG
63 TCCCAAGTCTAAGTCG-ATG
*
1263371 GGCAGACAAAAG
1 GGCAGATAAAAG
1263383 ATAGAGAAGT
Statistics
Matches: 143, Mismatches: 23, Indels: 28
0.74 0.12 0.14
Matches are distributed among these distances:
82 1 0.01
83 16 0.11
84 114 0.80
85 12 0.08
ACGTcount: A:0.40, C:0.17, G:0.26, T:0.17
Consensus pattern (81 bp):
GGCAGATAAAAGGTAAAAAGTCTCTCGGTCAAAGTCGATAGGCAGAAAAAGATAAAAAAGTCTCC
CAAGTCTAAGTCGATG
Found at i:1263393 original size:126 final size:126
Alignment explanation
Indices: 1263119--1263394 Score: 278
Period size: 126 Copynumber: 2.2 Consensus size: 126
1263109 AAAGCTGATA
* *
1263119 GGCAGATAAAAGGTAAAGAAGTCTCCCAGGTCAAAGTCGATAGGCAAATGAAAGATAAATAAGTC
1 GGCAGACAAAAGATAAAGAAGTCTCCCAGGTCAAAGTCGATAGGCAAATGAAAGATAAATAAGTC
* ** * ****
1263184 TCCCAAGTCTAAGTCGATGGGCAGATGAAAGGTGAAAAAGTCTCTTGGGTCAATGTCAACG
66 TCCCAAGTCAAAGTCGATGGGCAGACAAAAGATGAAAAAGTCTCCCAAGTCAATGTCAACG
* * * *
1263245 AGCAGAC-AAAGAGTAAAAAAGTCTCCC-GGATCAAAGTCGATTGGCAAAT-AAAGGGTAAA-AG
1 GGCAGACAAAAGA-TAAAGAAGTCTCCCAGG-TCAAAGTCGATAGGCAAATGAAA-GATAAATA-
* *
1263306 AGTCTCTCGAGTCAAAGTCGATGGGCAGACAAAAGAT-AAAGAAGTCTCCCAAGTCTAA-G-CGA
62 AGTCTCCCAAGTCAAAGTCGATGGGCAGACAAAAGATGAAA-AAGTCTCCCAAGTC-AATGTC-A
*
1263368 ATG
124 ACG
*
1263371 GGCAGACAAAAGATAGAGAAGTCT
1 GGCAGACAAAAGATAAAGAAGTCT
1263395 GGAGTAAGAC
Statistics
Matches: 122, Mismatches: 20, Indels: 16
0.77 0.13 0.10
Matches are distributed among these distances:
125 14 0.11
126 101 0.83
127 7 0.06
ACGTcount: A:0.40, C:0.16, G:0.26, T:0.18
Consensus pattern (126 bp):
GGCAGACAAAAGATAAAGAAGTCTCCCAGGTCAAAGTCGATAGGCAAATGAAAGATAAATAAGTC
TCCCAAGTCAAAGTCGATGGGCAGACAAAAGATGAAAAAGTCTCCCAAGTCAATGTCAACG
Found at i:1278075 original size:14 final size:13
Alignment explanation
Indices: 1278055--1278137 Score: 100
Period size: 13 Copynumber: 6.4 Consensus size: 13
1278045 GTCCTCCGCA
1278055 AAAAAAAAAAAAC
1 AAAAAAAAAAAAC
1278068 AGAAAAAAACAAAAC
1 A-AAAAAAA-AAAAC
*
1278083 -AAAAAAAACAA-
1 AAAAAAAAAAAAC
*
1278094 AAAAAAACAAAAC
1 AAAAAAAAAAAAC
1278107 AAAAAACAAAAAAC
1 AAAAAA-AAAAAAC
1278121 -AAAAAAAAAAAC
1 AAAAAAAAAAAAC
1278133 AAAAA
1 AAAAA
1278138 CAACAACAAA
Statistics
Matches: 60, Mismatches: 4, Indels: 12
0.79 0.05 0.16
Matches are distributed among these distances:
12 19 0.32
13 23 0.38
14 13 0.22
15 5 0.08
ACGTcount: A:0.88, C:0.11, G:0.01, T:0.00
Consensus pattern (13 bp):
AAAAAAAAAAAAC
Found at i:1278075 original size:15 final size:14
Alignment explanation
Indices: 1278054--1278131 Score: 104
Period size: 14 Copynumber: 5.6 Consensus size: 14
1278044 CGTCCTCCGC
1278054 AAAAAAAAAA-AAA
1 AAAAAAAAAACAAA
* *
1278067 CAGAAAAAAACAAA
1 AAAAAAAAAACAAA
*
1278081 ACAAAAAAAACAAA
1 AAAAAAAAAACAAA
1278095 AAAAAACAAAACAAA
1 AAAAAA-AAAACAAA
*
1278110 AAACAAAAAACAAA
1 AAAAAAAAAACAAA
1278124 AAAAAAAA
1 AAAAAAAA
1278132 CAAAAACAAC
Statistics
Matches: 55, Mismatches: 8, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
13 8 0.15
14 34 0.62
15 13 0.24
ACGTcount: A:0.88, C:0.10, G:0.01, T:0.00
Consensus pattern (14 bp):
AAAAAAAAAACAAA
Found at i:1278076 original size:19 final size:18
Alignment explanation
Indices: 1278054--1278140 Score: 104
Period size: 19 Copynumber: 4.8 Consensus size: 18
1278044 CGTCCTCCGC
* *
1278054 AAAAAAAAAAA-AACAGA
1 AAAAAAAAAAACAAAAAA
*
1278071 AAAAAACAAAACAAAAAA
1 AAAAAAAAAAACAAAAAA
1278089 AACAAAAAAAAACAAAACAA
1 AA-AAAAAAAAACAAAA-AA
*
1278109 AAAACAAAAAACAAAAAA
1 AAAAAAAAAAACAAAAAA
*
1278127 AAAAACAAAAACAA
1 AAAAAAAAAAACAA
1278141 CAACAAAAAG
Statistics
Matches: 60, Mismatches: 7, Indels: 5
0.83 0.10 0.07
Matches are distributed among these distances:
17 10 0.17
18 20 0.33
19 26 0.43
20 4 0.07
ACGTcount: A:0.87, C:0.11, G:0.01, T:0.00
Consensus pattern (18 bp):
AAAAAAAAAAACAAAAAA
Found at i:1278096 original size:31 final size:29
Alignment explanation
Indices: 1278053--1278149 Score: 110
Period size: 29 Copynumber: 3.3 Consensus size: 29
1278043 GCGTCCTCCG
*
1278053 CAAAAAAAA-AAAAACAGAAAAAAACAAAA
1 CAAAAAAAACAAAAA-AAAAAAAAACAAAA
*
1278082 CAAAAAAAACAAAAAAAAACAAAACAAAA
1 CAAAAAAAACAAAAAAAAAAAAAACAAAA
1278111 -AACAAAAAACAAAAAAAAAAACAAA-AACAA
1 CAA-AAAAAACAAAAAAAAAAA-AAACAA-AA
*
1278141 CAACAAAAA
1 CAAAAAAAA
1278150 GGGTCCGGAT
Statistics
Matches: 59, Mismatches: 4, Indels: 9
0.82 0.06 0.12
Matches are distributed among these distances:
28 2 0.03
29 40 0.68
30 15 0.25
31 2 0.03
ACGTcount: A:0.86, C:0.13, G:0.01, T:0.00
Consensus pattern (29 bp):
CAAAAAAAACAAAAAAAAAAAAAACAAAA
Found at i:1278145 original size:12 final size:11
Alignment explanation
Indices: 1278054--1278149 Score: 84
Period size: 10 Copynumber: 9.4 Consensus size: 11
1278044 CGTCCTCCGC
1278054 AAAA-AAAA-A
1 AAAACAAAACA
*
1278063 AAAACAGAA-A
1 AAAACAAAACA
1278073 AAAACAAAAC-
1 AAAACAAAACA
1278083 AAAA-AAAACA
1 AAAACAAAACA
1278093 AAAA-AAAAC-
1 AAAACAAAACA
1278102 AAAACAAAA-A
1 AAAACAAAACA
*
1278112 ACAA-AAAACAA
1 AAAACAAAAC-A
*
1278123 AAAAAAAAACA
1 AAAACAAAACA
1278134 AAAACAACAACA
1 AAAACAA-AACA
1278146 AAAA
1 AAAA
1278150 GGGTCCGGAT
Statistics
Matches: 73, Mismatches: 5, Indels: 15
0.78 0.05 0.16
Matches are distributed among these distances:
9 17 0.23
10 32 0.44
11 11 0.15
12 13 0.18
ACGTcount: A:0.86, C:0.12, G:0.01, T:0.00
Consensus pattern (11 bp):
AAAACAAAACA
Found at i:1278145 original size:24 final size:22
Alignment explanation
Indices: 1278056--1278149 Score: 113
Period size: 24 Copynumber: 4.2 Consensus size: 22
1278046 TCCTCCGCAA
*
1278056 AAAAAAAAAAACAGAAAAAAAC
1 AAAAAAAAAAACAAAAAAAAAC
1278078 AAAACAAAAAAAACAAAAAAAAAC
1 -AAA-AAAAAAAACAAAAAAAAAC
*
1278102 AAAACAAAAAAC---AAAAAAC
1 AAAAAAAAAAACAAAAAAAAAC
1278121 AAAAAAAAAAACAAAAACAACAAC
1 AAAAAAAAAAACAAAAA-AA-AAC
1278145 AAAAA
1 AAAAA
1278150 GGGTCCGGAT
Statistics
Matches: 62, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
19 18 0.29
22 10 0.16
23 8 0.13
24 26 0.42
ACGTcount: A:0.86, C:0.13, G:0.01, T:0.00
Consensus pattern (22 bp):
AAAAAAAAAAACAAAAAAAAAC
Found at i:1278149 original size:1 final size:1
Alignment explanation
Indices: 1278054--1278137 Score: 78
Period size: 1 Copynumber: 84.0 Consensus size: 1
1278044 CGTCCTCCGC
* * * * * * * *
1278054 AAAAAAAAAAAAACAGAAAAAAACAAAACAAAAAAAACAAAAAAAAACAAAACAAAAAACAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
* *
1278119 ACAAAAAAAAAAACAAAAA
1 AAAAAAAAAAAAAAAAAAA
1278138 CAACAACAAA
Statistics
Matches: 63, Mismatches: 20, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
1 63 1.00
ACGTcount: A:0.88, C:0.11, G:0.01, T:0.00
Consensus pattern (1 bp):
A
Done.