Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A08
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: 123748673
ACGTcount: A:0.31, C:0.17, G:0.17, T:0.31
Warning! 5630000 characters in sequence are not A, C, G, or T
File 181 of 373
Found at i:60689242 original size:37 final size:37
Alignment explanation
Indices: 60689192--60689271 Score: 108
Period size: 37 Copynumber: 2.2 Consensus size: 37
60689182 CTTATTACGA
* *
60689192 AGTCTTACCCGGACATAA-TCTCCACACGAAGTTATCG
1 AGTCTTACCCGGACAAAATTC-CCACACGAAGTCATCG
*
60689229 AGTCTTACCCGGACAAAATTCCCACACGCAGTCATCG
1 AGTCTTACCCGGACAAAATTCCCACACGAAGTCATCG
*
60689266 GGTCTT
1 AGTCTT
60689272 TAGAGCCCGG
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 36 0.95
38 2 0.05
ACGTcount: A:0.28, C:0.31, G:0.17, T:0.24
Consensus pattern (37 bp):
AGTCTTACCCGGACAAAATTCCCACACGAAGTCATCG
Found at i:60689461 original size:47 final size:47
Alignment explanation
Indices: 60689402--60689793 Score: 574
Period size: 47 Copynumber: 8.4 Consensus size: 47
60689392 TATCACATTT
* * *
60689402 ATACAC-T-TTCACATTCATCACATCGGCCATTAGGCCTTATCTCAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* *
60689447 ATACACATGCTCACATTCATCACATTGGCCACTCGGCCTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
60689494 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* * *
60689541 ATATACATGTTCACTTTCATCACATTGGCCATTCGGCTTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* * *
60689588 ATACACACGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACCC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* *
60689635 ATATACATGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* *
60689682 ATACACCTATTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* * *
60689729 ATATACATGTTCACTTTCATCACATTGGCCATTCGGCCCTATTCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTA-TCACAC
*
60689777 ATATACACT-TTCACATT
1 ATACACA-TGTTCACATT
60689794 TATTCAATTA
Statistics
Matches: 316, Mismatches: 27, Indels: 5
0.91 0.08 0.01
Matches are distributed among these distances:
45 6 0.02
46 1 0.00
47 288 0.91
48 20 0.06
49 1 0.00
ACGTcount: A:0.27, C:0.32, G:0.10, T:0.32
Consensus pattern (47 bp):
ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
Found at i:60689679 original size:22 final size:22
Alignment explanation
Indices: 60689653--60689727 Score: 62
Period size: 22 Copynumber: 3.3 Consensus size: 22
60689643 GTTCACTTTC
60689653 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
*** * *
60689675 ATCACACATACACCTATTC-ACATT
1 AT--CACATTGGCC-ATTCGGCCTT
60689699 CATCACATTGGCCATTCGGCCTT
1 -ATCACATTGGCCATTCGGCCTT
60689722 ATCACA
1 ATCACA
60689728 CATATACATG
Statistics
Matches: 38, Mismatches: 10, Indels: 10
0.66 0.17 0.17
Matches are distributed among these distances:
22 12 0.32
23 10 0.26
24 10 0.26
25 6 0.16
ACGTcount: A:0.27, C:0.33, G:0.11, T:0.29
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:60694056 original size:40 final size:40
Alignment explanation
Indices: 60693999--60694387 Score: 703
Period size: 40 Copynumber: 9.8 Consensus size: 40
60693989 CCAGCATGAT
* * *
60693999 TGCTCTTCGGGATTTAGCACGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
60694039 TGCTCTTCGGAACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
60694079 TGCTCTTC-GGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
60694118 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
60694158 TGCT-TTC-GGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
60694196 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
60694236 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
60694276 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
*
60694316 TGCTCTTCGGGACTTAGCCCGGATATATCACTAGCACGAA
1 TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
60694356 TGCTCTTCGGGACTTAGCCCGGATACATCACT
1 TGCTCTTCGGGACTTAGCCCGGATACATCACT
60694388 CGAATAACCA
Statistics
Matches: 337, Mismatches: 9, Indels: 6
0.96 0.03 0.02
Matches are distributed among these distances:
38 34 0.10
39 44 0.13
40 259 0.77
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (40 bp):
TGCTCTTCGGGACTTAGCCCGGATACATCACTAGCACGAA
Found at i:60696247 original size:35 final size:35
Alignment explanation
Indices: 60696172--60696247 Score: 84
Period size: 35 Copynumber: 2.2 Consensus size: 35
60696162 CTTATTACGA
* *
60696172 AGTCTTACCCGGACATAATCTCACACGAATTATCG
1 AGTCTTACCCGGACAAAATCTCACACGAATCATCG
*
60696207 AGTCTTA-CCGGACAAAAT-TCCACACGCAGTCATCG
1 AGTCTTACCCGGACAAAATCT-CACACG-AATCATCG
*
60696242 GGTCTT
1 AGTCTT
60696248 TAGAGCCCGG
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
33 1 0.03
34 16 0.46
35 18 0.51
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (35 bp):
AGTCTTACCCGGACAAAATCTCACACGAATCATCG
Found at i:60696437 original size:47 final size:47
Alignment explanation
Indices: 60696378--60696763 Score: 538
Period size: 47 Copynumber: 8.4 Consensus size: 47
60696368 TATCACATTT
* * *
60696378 ATACAC-T-TTCACATTCATCACATCGGCCATTAGGCCTTATCTCAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* *
60696423 ATACACATGCTCACATTCATCACATTGGCCACTCGGCCTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
60696470 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* * *
60696517 ATATACATGTTCACTTTCATCACATTGGCCATTCGGCTTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* * *
60696564 ATA-ACACGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACCC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
60696610 ATA-ACATG-TCAC-TTCATCACATTGGCCA-TCGGCCTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* *
60696653 ATACACCTATTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
* * *
60696700 ATATACATGTTCACTTTCATCACATTGGCCA-TCGGCCCTATTCACAC
1 ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTA-TCACAC
*
60696747 ATATACACT-TTCACATT
1 ATACACA-TGTTCACATT
60696764 TATTCAATTA
Statistics
Matches: 310, Mismatches: 23, Indels: 14
0.89 0.07 0.04
Matches are distributed among these distances:
43 17 0.05
44 19 0.06
45 14 0.05
46 72 0.23
47 187 0.60
48 1 0.00
ACGTcount: A:0.27, C:0.32, G:0.10, T:0.31
Consensus pattern (47 bp):
ATACACATGTTCACATTCATCACATTGGCCATTCGGCCTTATCACAC
Found at i:60696584 original size:24 final size:24
Alignment explanation
Indices: 60696510--60696586 Score: 61
Period size: 23 Copynumber: 3.2 Consensus size: 24
60696500 ATTCGGCCTT
*
60696510 ATCACACATATACATGTTCACTTTC
1 ATCACACATA-ACACGTTCACTTTC
* ** * *
60696535 ATCACA-TTGGC-CATTCGGCTTT-
1 ATCACACATAACACGTTC-ACTTTC
60696557 ATCACACATAACACGTTCACTTTC
1 ATCACACATAACACGTTCACTTTC
60696581 ATCACA
1 ATCACA
60696587 TTGGCCATTC
Statistics
Matches: 37, Mismatches: 11, Indels: 9
0.65 0.19 0.16
Matches are distributed among these distances:
22 9 0.24
23 11 0.30
24 11 0.30
25 6 0.16
ACGTcount: A:0.30, C:0.30, G:0.08, T:0.32
Consensus pattern (24 bp):
ATCACACATAACACGTTCACTTTC
Found at i:60696703 original size:183 final size:188
Alignment explanation
Indices: 60696377--60696763 Score: 633
Period size: 183 Copynumber: 2.1 Consensus size: 188
60696367 TTATCACATT
*
60696377 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCTCACATACACATGCTCACATTCA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATACACATGCTCACATTCA
*
60696442 TCACATTGGCCACTCGGCCTTATCACACATACACATGTTCACATTCATCACATTGGCCATTCGGC
66 TCACATTGGCCACTCGGCCTTATCACACATACACATATTCACATTCATCACATTGGCCATTCGGC
**
60696507 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATTCGGCTTTA-TCACACA
131 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCA-TCGGCCCTATTCACACA
* * * * *
60696565 TA-ACACGTTCACTTTCATCACATTGGCCATTCGGCCTTATCACCCATA-ACATG-TCAC-TTCA
1 TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATACACATGCTCACATTCA
*
60696626 TCACATTGGCCA-TCGGCCTTATCACACATACACCTATTCACATTCATCACATTGGCCATTCGGC
66 TCACATTGGCCACTCGGCCTTATCACACATACACATATTCACATTCATCACATTGGCCATTCGGC
60696690 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATCGGCCCTATTCACACA
131 CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATCGGCCCTATTCACACA
60696748 TATACACTTTCACATT
1 TATACACTTTCACATT
60696764 TATTCAATTA
Statistics
Matches: 185, Mismatches: 12, Indels: 8
0.90 0.06 0.04
Matches are distributed among these distances:
182 7 0.04
183 100 0.54
184 27 0.15
185 4 0.02
186 5 0.03
187 40 0.22
188 2 0.01
ACGTcount: A:0.27, C:0.32, G:0.10, T:0.31
Consensus pattern (188 bp):
TATACACTTTCACATTCATCACATCGGCCATTAGGCCTTATCACACATACACATGCTCACATTCA
TCACATTGGCCACTCGGCCTTATCACACATACACATATTCACATTCATCACATTGGCCATTCGGC
CTTATCACACATATACATGTTCACTTTCATCACATTGGCCATCGGCCCTATTCACACA
Found at i:60711705 original size:15 final size:15
Alignment explanation
Indices: 60711685--60711716 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
60711675 CCAGCCAAGG
60711685 ATTGGTTTACTTATA
1 ATTGGTTTACTTATA
60711700 ATTGGTTTACTTATA
1 ATTGGTTTACTTATA
60711715 AT
1 AT
60711717 GTGAATTTAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.28, C:0.06, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGGTTTACTTATA
Found at i:60712178 original size:23 final size:23
Alignment explanation
Indices: 60712097--60712178 Score: 62
Period size: 23 Copynumber: 3.5 Consensus size: 23
60712087 TATTATATAT
60712097 TTAACTATAGTTTTACAGAAGAG
1 TTAACTATAGTTTTACAGAAGAG
* * *
60712120 TTCACTATAG-TTAACA-AACTTA-
1 TTAACTATAGTTTTACAGAA--GAG
* *
60712142 TCCTATCTAAAGTTTTACAGAAGAG
1 T--TAACTATAGTTTTACAGAAGAG
60712167 TTAACTATAGTT
1 TTAACTATAGTT
60712179 AACAAACTGG
Statistics
Matches: 42, Mismatches: 10, Indels: 14
0.64 0.15 0.21
Matches are distributed among these distances:
21 2 0.05
22 6 0.14
23 19 0.45
24 7 0.17
25 6 0.14
26 2 0.05
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.37
Consensus pattern (23 bp):
TTAACTATAGTTTTACAGAAGAG
Found at i:60714065 original size:7 final size:7
Alignment explanation
Indices: 60714055--60714087 Score: 66
Period size: 7 Copynumber: 4.7 Consensus size: 7
60714045 GGGGGATGGG
60714055 GGATGAA
1 GGATGAA
60714062 GGATGAA
1 GGATGAA
60714069 GGATGAA
1 GGATGAA
60714076 GGATGAA
1 GGATGAA
60714083 GGATG
1 GGATG
60714088 CTTTTCCCTA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.39, C:0.00, G:0.45, T:0.15
Consensus pattern (7 bp):
GGATGAA
Found at i:60714065 original size:14 final size:14
Alignment explanation
Indices: 60714038--60714080 Score: 50
Period size: 14 Copynumber: 3.1 Consensus size: 14
60714028 AAAAGAAAAG
**
60714038 GGGGGATGGGGGAT
1 GGGGGATGAAGGAT
60714052 GGGGGATGAAGGAT
1 GGGGGATGAAGGAT
**
60714066 GAAGGATGAAGGAT
1 GGGGGATGAAGGAT
60714080 G
1 G
60714081 AAGGATGCTT
Statistics
Matches: 25, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.28, C:0.00, G:0.58, T:0.14
Consensus pattern (14 bp):
GGGGGATGAAGGAT
Found at i:60718360 original size:25 final size:26
Alignment explanation
Indices: 60718312--60718360 Score: 66
Period size: 25 Copynumber: 1.9 Consensus size: 26
60718302 GAAAAAATCT
*
60718312 AATATTTTTTATATTTAGATAAATAA
1 AATATTTTTTATATTTAGACAAATAA
60718338 AATA-TTTTTATTATTTA-ACAAAT
1 AATATTTTTTA-TATTTAGACAAAT
60718361 TTCTTGCAAT
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 11 0.52
26 10 0.48
ACGTcount: A:0.45, C:0.02, G:0.02, T:0.51
Consensus pattern (26 bp):
AATATTTTTTATATTTAGACAAATAA
Found at i:60722915 original size:28 final size:27
Alignment explanation
Indices: 60722871--60722979 Score: 103
Period size: 28 Copynumber: 3.9 Consensus size: 27
60722861 CTGCACAATT
* *
60722871 GATGTCTT-GCACGCTAAGTGCTATACCG
1 GATGT-TTCGCACACTAAGTGCCAT-CCG
* *
60722899 GATGTTTCTCACACTAAGTGCCATCCTC
1 GATGTTTCGCACACTAAGTGCCATCC-G
** *
60722927 GATACTTCGCACACTAAGTGCCATTTCG
1 GATGTTTCGCACACTAAGTGCCA-TCCG
*
60722955 GATGTTTCGCACACTAAGTGTCATC
1 GATGTTTCGCACACTAAGTGCCATC
60722980 ATCAATACTT
Statistics
Matches: 65, Mismatches: 13, Indels: 7
0.76 0.15 0.08
Matches are distributed among these distances:
27 5 0.08
28 58 0.89
29 2 0.03
ACGTcount: A:0.23, C:0.28, G:0.19, T:0.30
Consensus pattern (27 bp):
GATGTTTCGCACACTAAGTGCCATCCG
Found at i:60722970 original size:56 final size:56
Alignment explanation
Indices: 60722879--60723058 Score: 231
Period size: 56 Copynumber: 3.2 Consensus size: 56
60722869 TTGATGTCTT
* * ** * *
60722879 GCACGCTAAGTGCTATACCGGATGTTTCTCACACTAAGTGCCATCCTCGATACTTC
1 GCACACTAAGTGCCATTTCGGATGTTTCGCACACTAAGTGCCATCCTCAATACTTC
* *
60722935 GCACACTAAGTGCCATTTCGGATGTTTCGCACACTAAGTGTCATCATCAATACTTC
1 GCACACTAAGTGCCATTTCGGATGTTTCGCACACTAAGTGCCATCCTCAATACTTC
** *
60722991 ATACACT--GTGTCATTTCGGATGTCTT-GCACACTAAGTGCCATCCTCAATACTTC
1 GCACACTAAGTGCCATTTCGGATGT-TTCGCACACTAAGTGCCATCCTCAATACTTC
60723045 GCACACTAAGTGCC
1 GCACACTAAGTGCC
60723059 GTTCGTTTGG
Statistics
Matches: 105, Mismatches: 16, Indels: 6
0.83 0.13 0.05
Matches are distributed among these distances:
54 46 0.44
55 2 0.02
56 57 0.54
ACGTcount: A:0.25, C:0.29, G:0.17, T:0.29
Consensus pattern (56 bp):
GCACACTAAGTGCCATTTCGGATGTTTCGCACACTAAGTGCCATCCTCAATACTTC
Found at i:60723027 original size:54 final size:55
Alignment explanation
Indices: 60722897--60723058 Score: 211
Period size: 54 Copynumber: 2.9 Consensus size: 55
60722887 AGTGCTATAC
* * *
60722897 CGGATGTTTCTCACACTAAGTGCCATCCTCGATACTTCGCACACTAAGTGCCATTT
1 CGGATGTTTCGCACACTAAGTGCCATCCTCAATACTTCACACACT-AGTGCCATTT
* * * *
60722953 CGGATGTTTCGCACACTAAGTGTCATCATCAATACTTCATACACT-GTGTCATTT
1 CGGATGTTTCGCACACTAAGTGCCATCCTCAATACTTCACACACTAGTGCCATTT
*
60723007 CGGATGTCTT-GCACACTAAGTGCCATCCTCAATACTTCGCACACTAAGTGCC
1 CGGATGT-TTCGCACACTAAGTGCCATCCTCAATACTTCACACACT-AGTGCC
60723059 GTTCGTTTGG
Statistics
Matches: 91, Mismatches: 12, Indels: 6
0.83 0.11 0.06
Matches are distributed among these distances:
54 46 0.51
55 2 0.02
56 43 0.47
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (55 bp):
CGGATGTTTCGCACACTAAGTGCCATCCTCAATACTTCACACACTAGTGCCATTT
Found at i:60723057 original size:28 final size:28
Alignment explanation
Indices: 60722908--60723058 Score: 132
Period size: 28 Copynumber: 5.5 Consensus size: 28
60722898 GGATGTTTCT
60722908 CACACTAAGTGCCATCCTCGATACTTCG
1 CACACTAAGTGCCATCCTCGATACTTCG
* **
60722936 CACACTAAGTGCCAT-TTCGGATGTTTCG
1 CACACTAAGTGCCATCCTC-GATACTTCG
* * * *
60722964 CACACTAAGTGTCATCATCAATACTTCA
1 CACACTAAGTGCCATCCTCGATACTTCG
* * * *
60722992 TACACT--GTGTCAT-TTCGGATGTCTT-G
1 CACACTAAGTGCCATCCTC-GAT-ACTTCG
*
60723018 CACACTAAGTGCCATCCTCAATACTTCG
1 CACACTAAGTGCCATCCTCGATACTTCG
60723046 CACACTAAGTGCC
1 CACACTAAGTGCC
60723059 GTTCGTTTGG
Statistics
Matches: 96, Mismatches: 19, Indels: 16
0.73 0.15 0.12
Matches are distributed among these distances:
25 2 0.02
26 14 0.15
27 8 0.08
28 68 0.71
29 4 0.04
ACGTcount: A:0.26, C:0.30, G:0.15, T:0.29
Consensus pattern (28 bp):
CACACTAAGTGCCATCCTCGATACTTCG
Found at i:60727683 original size:28 final size:27
Alignment explanation
Indices: 60727647--60727747 Score: 94
Period size: 28 Copynumber: 3.6 Consensus size: 27
60727637 TCAATGTCTT
* *
60727647 GCACGCTAAGTGCTATACCGGATGTTTC
1 GCACACTAAGTGCCAT-CCGGATGTTTC
* **
60727675 GCACACTAAGTGCCATCCTCGATACTTC
1 GCACACTAAGTGCCATCC-GGATGTTTC
* **
60727703 GCACACTAGGTGCCATTTTGGATGTTTC
1 GCACACTAAGTGCCA-TCCGGATGTTTC
*
60727731 GCACACTAAGTGTCATC
1 GCACACTAAGTGCCATC
60727748 ATCAATACTT
Statistics
Matches: 57, Mismatches: 14, Indels: 5
0.75 0.18 0.07
Matches are distributed among these distances:
27 3 0.05
28 53 0.93
29 1 0.02
ACGTcount: A:0.23, C:0.28, G:0.21, T:0.29
Consensus pattern (27 bp):
GCACACTAAGTGCCATCCGGATGTTTC
Found at i:60727807 original size:54 final size:55
Alignment explanation
Indices: 60727665--60727826 Score: 211
Period size: 54 Copynumber: 2.9 Consensus size: 55
60727655 AGTGCTATAC
* *
60727665 CGGATGTTTCGCACACTAAGTGCCATCCTCGATACTTCGCACACTAGGTGCCATTT
1 CGGATGTTTCGCACACTAAGTGCCATCCTCAATACTTCACACACTA-GTGCCATTT
* * * * *
60727721 TGGATGTTTCGCACACTAAGTGTCATCATCAATACTTCATACACT-GTGTCATTT
1 CGGATGTTTCGCACACTAAGTGCCATCCTCAATACTTCACACACTAGTGCCATTT
*
60727775 CGGATGTCTT-GCACACTAAGTGCCATCCTCAATACTTCGCACACTAAGTGCC
1 CGGATGT-TTCGCACACTAAGTGCCATCCTCAATACTTCACACACT-AGTGCC
60727827 GTTCGTTTGG
Statistics
Matches: 90, Mismatches: 13, Indels: 6
0.83 0.12 0.06
Matches are distributed among these distances:
54 45 0.50
55 2 0.02
56 43 0.48
ACGTcount: A:0.24, C:0.28, G:0.17, T:0.30
Consensus pattern (55 bp):
CGGATGTTTCGCACACTAAGTGCCATCCTCAATACTTCACACACTAGTGCCATTT
Found at i:60727825 original size:28 final size:28
Alignment explanation
Indices: 60727672--60727826 Score: 129
Period size: 28 Copynumber: 5.6 Consensus size: 28
60727662 TACCGGATGT
60727672 TTCGCACACTAAGTGCCATCCTCGATAC
1 TTCGCACACTAAGTGCCATCCTCGATAC
* ** * **
60727700 TTCGCACACTAGGTGCCATTTTGGATGT
1 TTCGCACACTAAGTGCCATCCTCGATAC
* * *
60727728 TTCGCACACTAAGTGTCATCATCAATAC
1 TTCGCACACTAAGTGCCATCCTCGATAC
** * * *
60727756 TTCATACACT--GTGTCAT-TTCGGATGTC
1 TTCGCACACTAAGTGCCATCCTC-GAT-AC
*
60727783 TT-GCACACTAAGTGCCATCCTCAATAC
1 TTCGCACACTAAGTGCCATCCTCGATAC
60727810 TTCGCACACTAAGTGCC
1 TTCGCACACTAAGTGCC
60727827 GTTCGTTTGG
Statistics
Matches: 96, Mismatches: 25, Indels: 12
0.72 0.19 0.09
Matches are distributed among these distances:
25 2 0.02
26 14 0.15
27 6 0.06
28 72 0.75
29 2 0.02
ACGTcount: A:0.25, C:0.29, G:0.16, T:0.30
Consensus pattern (28 bp):
TTCGCACACTAAGTGCCATCCTCGATAC
Found at i:60733923 original size:17 final size:17
Alignment explanation
Indices: 60733901--60733940 Score: 80
Period size: 17 Copynumber: 2.4 Consensus size: 17
60733891 TTTTGGATAG
60733901 AAATATTAGAAAGGGGA
1 AAATATTAGAAAGGGGA
60733918 AAATATTAGAAAGGGGA
1 AAATATTAGAAAGGGGA
60733935 AAATAT
1 AAATAT
60733941 GAGCTACCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.55, C:0.00, G:0.25, T:0.20
Consensus pattern (17 bp):
AAATATTAGAAAGGGGA
Found at i:60738750 original size:27 final size:26
Alignment explanation
Indices: 60738702--60738761 Score: 75
Period size: 27 Copynumber: 2.3 Consensus size: 26
60738692 GCGAGCCTGC
*
60738702 CAGATATTGTGACAAAGTCACCAGATA
1 CAGATATTGTGACAAAGCCACCAGA-A
* * *
60738729 CAGATATTGTGGCTAGGCCACCAGAA
1 CAGATATTGTGACAAAGCCACCAGAA
60738755 CAGATAT
1 CAGATAT
60738762 ATATATGTGG
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.37, C:0.20, G:0.22, T:0.22
Consensus pattern (26 bp):
CAGATATTGTGACAAAGCCACCAGAA
Found at i:60739637 original size:27 final size:27
Alignment explanation
Indices: 60739495--60739640 Score: 195
Period size: 27 Copynumber: 5.4 Consensus size: 27
60739485 GGGGCAAAAT
* * *
60739495 GGTAATTTTACCCCACAAGGGTATCTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* *
60739522 AGTAATTCTACCCTACAGGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
*
60739549 GGTATTTCTACCCTACAAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
* * *
60739576 AGTATTTCTACCCTACGAGGGTATTTC
1 GGTAATTCTACCCTACAAGGGTATTTC
60739603 GGTAATTCTACCCTAC-AGTGGTATTTC
1 GGTAATTCTACCCTACAAG-GGTATTTC
60739630 GGTAATTCTAC
1 GGTAATTCTAC
60739641 AACTTATCCA
Statistics
Matches: 106, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
26 2 0.02
27 104 0.98
ACGTcount: A:0.24, C:0.23, G:0.18, T:0.35
Consensus pattern (27 bp):
GGTAATTCTACCCTACAAGGGTATTTC
Found at i:60747065 original size:27 final size:27
Alignment explanation
Indices: 60747029--60747080 Score: 77
Period size: 27 Copynumber: 1.9 Consensus size: 27
60747019 TTTATGCACA
*
60747029 AGGGGCAAAATAGTCATTTAACACCCT
1 AGGGGCAAAATAGTAATTTAACACCCT
* *
60747056 AGGGGCAAAATGGTAATTTTACACC
1 AGGGGCAAAATAGTAATTTAACACC
60747081 ACAAGGGTAT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
27 22 1.00
ACGTcount: A:0.37, C:0.19, G:0.21, T:0.23
Consensus pattern (27 bp):
AGGGGCAAAATAGTAATTTAACACCCT
Found at i:60747098 original size:27 final size:27
Alignment explanation
Indices: 60747068--60747266 Score: 174
Period size: 27 Copynumber: 7.4 Consensus size: 27
60747058 GGGCAAAATG
*
60747068 GTAATTTTACACC-ACAAGGGTATATCA
1 GTAATTTTAC-CCTACAAGGGTATTTCA
*
60747095 GTAATTCTACCCTAC-AGTGGTATTTCA
1 GTAATTTTACCCTACAAG-GGTATTTCA
60747122 GT-ATTTCTACCCTACAAGGGTATTTCA
1 GTAATTT-TACCCTACAAGGGTATTTCA
* * *
60747149 GTAATTCTATCCTACAGGGGTATTTC-
1 GTAATTTTACCCTACAAGGGTATTTCA
*
60747175 GATAATTCTACCCTAC-AGGAGTATTTCA
1 G-TAATTTTACCCTACAAGG-GTATTTCA
* * ** *
60747203 ATAATTCTACCCTACTGGGGTATTTCG
1 GTAATTTTACCCTACAAGGGTATTTCA
* * * **
60747230 GTAATTCTACCTTATAAGGGTATTTTG
1 GTAATTTTACCCTACAAGGGTATTTCA
60747257 GTAATTTTAC
1 GTAATTTTAC
60747267 AACTTTTCCA
Statistics
Matches: 145, Mismatches: 18, Indels: 18
0.80 0.10 0.10
Matches are distributed among these distances:
26 10 0.07
27 128 0.88
28 7 0.05
ACGTcount: A:0.28, C:0.19, G:0.16, T:0.37
Consensus pattern (27 bp):
GTAATTTTACCCTACAAGGGTATTTCA
Found at i:60747144 original size:54 final size:53
Alignment explanation
Indices: 60747068--60747254 Score: 234
Period size: 54 Copynumber: 3.5 Consensus size: 53
60747058 GGGCAAAATG
* * *
60747068 GTAATTTTACACC-ACAAGGGTATATCAGTAATTCTACCCTACAGTGGTATTTC
1 GTAATTCTAC-CCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* *
60747121 AGTATTTCTACCCTACAAGGGTATTTCAGTAATTCTATCCTACAGGGGTATTTC
1 -GTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* *
60747175 GATAATTCTACCCTAC-AGGAGTATTTCAATAATTCTACCCTACTGGGGTATTTC
1 G-TAATTCTACCCTACAAGG-GTATTTCAGTAATTCTACCCTACAGGGGTATTTC
* *
60747229 GGTAATTCTACCTTATAAGGGTATTT
1 -GTAATTCTACCCTACAAGGGTATTT
60747255 TGGTAATTTT
Statistics
Matches: 117, Mismatches: 11, Indels: 10
0.85 0.08 0.07
Matches are distributed among these distances:
53 6 0.05
54 107 0.91
55 4 0.03
ACGTcount: A:0.28, C:0.20, G:0.16, T:0.36
Consensus pattern (53 bp):
GTAATTCTACCCTACAAGGGTATTTCAGTAATTCTACCCTACAGGGGTATTTC
Found at i:60747262 original size:81 final size:81
Alignment explanation
Indices: 60747081--60747262 Score: 233
Period size: 81 Copynumber: 2.2 Consensus size: 81
60747071 ATTTTACACC
* * * *
60747081 ACAAGGGTATATCAGTAATTCTACCCTACAGTGGTATTTCAGTATTTCTACCCTACAAGGGTATT
1 ACAAGGGTATTTCGGTAATTCTACCCTACAGTGGTATTTCAATAATTCTACCCTACAAGGGTATT
60747146 TCAGTAATTCTATCCT
66 TCAGTAATTCTATCCT
* * **
60747162 ACAGGGGTATTTCGATAATTCTACCCTACAG-GAGTATTTCAATAATTCTACCCTACTGGGGTAT
1 ACAAGGGTATTTCGGTAATTCTACCCTACAGTG-GTATTTCAATAATTCTACCCTACAAGGGTAT
*
60747226 TTCGGTAATTCTA-CCTT
65 TTCAGTAATTCTATCC-T
* *
60747243 ATAAGGGTATTTTGGTAATT
1 ACAAGGGTATTTCGGTAATT
60747263 TTACAACTTT
Statistics
Matches: 86, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
80 3 0.03
81 83 0.97
ACGTcount: A:0.27, C:0.19, G:0.17, T:0.37
Consensus pattern (81 bp):
ACAAGGGTATTTCGGTAATTCTACCCTACAGTGGTATTTCAATAATTCTACCCTACAAGGGTATT
TCAGTAATTCTATCCT
Found at i:60749186 original size:9 final size:8
Alignment explanation
Indices: 60749168--60749201 Score: 50
Period size: 8 Copynumber: 4.1 Consensus size: 8
60749158 ACTTGTTCTT
60749168 AAAAATAA
1 AAAAATAA
60749176 AAAAATAAA
1 AAAAAT-AA
60749185 AAAAATAA
1 AAAAATAA
*
60749193 GAAAATAA
1 AAAAATAA
60749201 A
1 A
60749202 TTTATATATA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
8 15 0.65
9 8 0.35
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (8 bp):
AAAAATAA
Found at i:60749190 original size:17 final size:17
Alignment explanation
Indices: 60749168--60749201 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
60749158 ACTTGTTCTT
60749168 AAAAATAAAAAAATAAA
1 AAAAATAAAAAAATAAA
*
60749185 AAAAATAAGAAAATAAA
1 AAAAATAAAAAAATAAA
60749202 TTTATATATA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.85, C:0.00, G:0.03, T:0.12
Consensus pattern (17 bp):
AAAAATAAAAAAATAAA
Found at i:60751224 original size:23 final size:23
Alignment explanation
Indices: 60751187--60751310 Score: 114
Period size: 23 Copynumber: 5.3 Consensus size: 23
60751177 CTCTCCTCCT
60751187 GAGCTGATGAACAGTAAGCTCTATC
1 GAGCTGA--AACAGTAAGCTCTATC
*
60751212 TAGCTGAAACAGTAAGCTCTATC
1 GAGCTGAAACAGTAAGCTCTATC
60751235 GAGCTG-AACAGTAAGCTC-ATAC
1 GAGCTGAAACAGTAAGCTCTAT-C
* *
60751257 GAGCTGAAA-TGATAAGCTCCAAT-
1 GAGCTGAAACAG-TAAGCT-CTATC
*
60751280 GAGATGAAAACAGTAAGCTCT-TAC
1 GAGCTG-AAACAGTAAGCTCTAT-C
60751304 GAGCTGA
1 GAGCTGA
60751311 TATATCGGTA
Statistics
Matches: 83, Mismatches: 7, Indels: 20
0.75 0.06 0.18
Matches are distributed among these distances:
21 2 0.02
22 21 0.25
23 36 0.43
24 15 0.18
25 9 0.11
ACGTcount: A:0.36, C:0.19, G:0.23, T:0.22
Consensus pattern (23 bp):
GAGCTGAAACAGTAAGCTCTATC
Found at i:60751247 original size:22 final size:22
Alignment explanation
Indices: 60751194--60751264 Score: 108
Period size: 22 Copynumber: 3.2 Consensus size: 22
60751184 CCTGAGCTGA
*
60751194 TGAACAGTAAGCTCTATCTAGC
1 TGAACAGTAAGCTCTATCGAGC
60751216 TGAAACAGTAAGCTCTATCGAGC
1 TG-AACAGTAAGCTCTATCGAGC
60751239 TGAACAGTAAGCTC-ATACGAGC
1 TGAACAGTAAGCTCTAT-CGAGC
60751261 TGAA
1 TGAA
60751265 ATGATAAGCT
Statistics
Matches: 46, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
21 2 0.04
22 23 0.50
23 21 0.46
ACGTcount: A:0.35, C:0.21, G:0.21, T:0.23
Consensus pattern (22 bp):
TGAACAGTAAGCTCTATCGAGC
Found at i:60751262 original size:45 final size:44
Alignment explanation
Indices: 60751192--60751310 Score: 125
Period size: 45 Copynumber: 2.6 Consensus size: 44
60751182 CTCCTGAGCT
* *
60751192 GATGAACAGTAAGCTCTATCTAGCTGAAACAG-TAAGCT-CTATCGA
1 GATGAACAGTAAGCTCTA-CGAGCTGAAA-AGATAAGCTCCAAT-GA
* *
60751237 GCTGAACAGTAAGCTCATACGAGCTGAAATGATAAGCTCCAATGA
1 GATGAACAGTAAGCTC-TACGAGCTGAAAAGATAAGCTCCAATGA
60751282 GATGAAAACAGTAAGCTCTTACGAGCTGA
1 GATG--AACAGTAAGCTC-TACGAGCTGA
60751311 TATATCGGTA
Statistics
Matches: 63, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
44 1 0.02
45 35 0.56
46 5 0.08
47 22 0.35
ACGTcount: A:0.37, C:0.19, G:0.22, T:0.22
Consensus pattern (44 bp):
GATGAACAGTAAGCTCTACGAGCTGAAAAGATAAGCTCCAATGA
Found at i:60760087 original size:29 final size:29
Alignment explanation
Indices: 60760050--60760121 Score: 135
Period size: 29 Copynumber: 2.5 Consensus size: 29
60760040 TAATCGATCT
60760050 CGCACACTTAGTGCTATACAACTTGAACC
1 CGCACACTTAGTGCTATACAACTTGAACC
*
60760079 CGCACACTTAGTGCTATACAATTTGAACC
1 CGCACACTTAGTGCTATACAACTTGAACC
60760108 CGCACACTTAGTGC
1 CGCACACTTAGTGC
60760122 CAATTTCATG
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
29 42 1.00
ACGTcount: A:0.29, C:0.31, G:0.15, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCTATACAACTTGAACC
Found at i:60762282 original size:40 final size:40
Alignment explanation
Indices: 60762238--60762501 Score: 351
Period size: 40 Copynumber: 6.7 Consensus size: 40
60762228 GCTCCTCGTT
* *
60762238 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAATTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATT-TAGTAACTCGCA
*
60762278 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
60762318 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
*
60762358 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
60762398 CAAATGCCTTCGAG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
* * *
60762437 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTTACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGAT-TTAGTAAC-TCGCA
60762478 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
60762502 CAGCATTCAA
Statistics
Matches: 204, Mismatches: 14, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
38 1 0.00
39 49 0.24
40 145 0.71
41 9 0.04
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATTTAGTAACTCGCA
Found at i:60763598 original size:13 final size:13
Alignment explanation
Indices: 60763580--60763604 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
60763570 GGATGAGCAT
60763580 TTTTTTTTCTTTG
1 TTTTTTTTCTTTG
60763593 TTTTTTTTCTTT
1 TTTTTTTTCTTT
60763605 CTAGTTTCGG
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:0.00, C:0.08, G:0.04, T:0.88
Consensus pattern (13 bp):
TTTTTTTTCTTTG
Found at i:60770359 original size:39 final size:40
Alignment explanation
Indices: 60770242--60770463 Score: 255
Period size: 39 Copynumber: 5.7 Consensus size: 40
60770232 GCTCCTCGTT
* *
60770242 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAAT-TCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGT-ATCTCGCA
* * *
60770282 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
*
60770322 CAAATGCCTACGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
60770361 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
* * *
60770400 CAAATGCCTTC-GGATTTAGTCCGGATATT-GTCA-CTTAGCA
1 CAAATGCCTTCGGGACTTAGCCCGGA-ATTAGT-ATC-TCGCA
60770440 C-AA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
60770464 CATCATTCAA
Statistics
Matches: 162, Mismatches: 13, Indels: 15
0.85 0.07 0.08
Matches are distributed among these distances:
38 8 0.05
39 98 0.60
40 54 0.33
41 2 0.01
ACGTcount: A:0.25, C:0.27, G:0.23, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCA
Found at i:60774247 original size:38 final size:38
Alignment explanation
Indices: 60774204--60774276 Score: 146
Period size: 38 Copynumber: 1.9 Consensus size: 38
60774194 TTCATCCTTT
60774204 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
60774242 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAG
1 TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAG
60774277 AAGGAGTTCT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 35 1.00
ACGTcount: A:0.30, C:0.14, G:0.23, T:0.33
Consensus pattern (38 bp):
TTCATTTCTTTTGGCCGAAAATTCTAAGGAAGGAGGAA
Found at i:60788262 original size:27 final size:27
Alignment explanation
Indices: 60788232--60788353 Score: 136
Period size: 27 Copynumber: 4.5 Consensus size: 27
60788222 AAATTGTACA
*
60788232 GCACTAAGTGTGCGATTTGACTATGTT
1 GCACTAAGTGTGCGAATTGACTATGTT
* * *
60788259 GCACTAAGTGTGCGAAATGAATATGAT
1 GCACTAAGTGTGCGAATTGACTATGTT
* **
60788286 GCACTAAGTGTGCGAATTGACCATGCG
1 GCACTAAGTGTGCGAATTGACTATGTT
* * * *
60788313 GCACTAAGTGTGCGAGTTGATTATATA
1 GCACTAAGTGTGCGAATTGACTATGTT
*
60788340 GCACTGAGTGTGCG
1 GCACTAAGTGTGCG
60788354 GACTCAATAT
Statistics
Matches: 79, Mismatches: 16, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 79 1.00
ACGTcount: A:0.27, C:0.16, G:0.29, T:0.29
Consensus pattern (27 bp):
GCACTAAGTGTGCGAATTGACTATGTT
Found at i:60788292 original size:54 final size:54
Alignment explanation
Indices: 60788231--60788353 Score: 158
Period size: 54 Copynumber: 2.3 Consensus size: 54
60788221 TAAATTGTAC
* * **
60788231 AGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGAT
1 AGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAAATGAATAT-AT
** *
60788286 -GCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAAATGAATATAT
*
60788339 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
60788354 GACTCAATAT
Statistics
Matches: 59, Mismatches: 8, Indels: 3
0.84 0.11 0.04
Matches are distributed among these distances:
53 2 0.03
54 57 0.97
ACGTcount: A:0.28, C:0.15, G:0.28, T:0.28
Consensus pattern (54 bp):
AGCACTAAGTGTGCGAATTGACCATGCGGCACTAAGTGTGCGAAATGAATATAT
Found at i:60796262 original size:27 final size:27
Alignment explanation
Indices: 60796231--60796408 Score: 196
Period size: 27 Copynumber: 6.6 Consensus size: 27
60796221 TAAATTGTAC
60796231 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * ** *
60796258 TGCACTAGGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
60796284 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
60796312 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
60796340 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
60796367 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
60796394 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
60796409 GACTCAATAT
Statistics
Matches: 127, Mismatches: 21, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
27 104 0.82
28 23 0.18
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:60796345 original size:82 final size:81
Alignment explanation
Indices: 60796232--60796387 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
60796222 AAATTGTACA
* * *
60796232 GCACTAAGTGTGCGATTTGACTATGTTGCACTAGGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
60796296 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
60796313 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
60796378 TGCGAGTTGA
65 TGCGAATTGA
60796388 TTATATAGCA
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 15 0.23
82 50 0.76
83 1 0.02
ACGTcount: A:0.26, C:0.15, G:0.29, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:60796399 original size:82 final size:81
Alignment explanation
Indices: 60796228--60796408 Score: 220
Period size: 82 Copynumber: 2.2 Consensus size: 81
60796218 GATTAAATTG
* * *
60796228 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAGGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
60796293 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
60796309 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
60796373 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
60796391 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
60796409 GACTCAATAT
Statistics
Matches: 83, Mismatches: 15, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
81 18 0.22
82 65 0.78
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:60798260 original size:40 final size:40
Alignment explanation
Indices: 60798160--60798377 Score: 293
Period size: 40 Copynumber: 5.5 Consensus size: 40
60798150 AAGCCAAGTA
* * *
60798160 CCTTCGGGATTTA-ACCGGATATAGCT-ACTCGCTC-AATG
1 CCTTCGGGACTTAGCCCGGATATAG-TAACTCGCACAAATG
* *
60798198 CCTTCGGGACATAGCCCGGATATAGTAACTCGCACCAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
* *
60798238 CCTTCGGGACTTAGCTCAGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
60798278 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
*
60798318 CCTTCGGGACTTAGCCCGGA-ACTAGTCACTAGCGCA-AAATG
1 CCTTCGGGACTTAGCCCGGATA-TAGTAACT--CGCACAAATG
60798359 CCTTCGGGACTTAGCCCGG
1 CCTTCGGGACTTAGCCCGG
60798378 TTATCATCCA
Statistics
Matches: 163, Mismatches: 11, Indels: 9
0.89 0.06 0.05
Matches are distributed among these distances:
38 12 0.07
39 18 0.11
40 105 0.64
41 24 0.15
42 4 0.02
ACGTcount: A:0.26, C:0.28, G:0.23, T:0.23
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTAACTCGCACAAATG
Found at i:60804629 original size:12 final size:12
Alignment explanation
Indices: 60804614--60804659 Score: 56
Period size: 12 Copynumber: 3.8 Consensus size: 12
60804604 TCGATTTCTT
*
60804614 TTTCTTTTTCAC
1 TTTCTTTTTCAA
60804626 TTTCTTTTTCAA
1 TTTCTTTTTCAA
**
60804638 TTTCAATTTCAA
1 TTTCTTTTTCAA
60804650 TTTCATTTTT
1 TTTC-TTTTT
60804660 ATTTTTCTCA
Statistics
Matches: 28, Mismatches: 5, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
12 25 0.89
13 3 0.11
ACGTcount: A:0.17, C:0.17, G:0.00, T:0.65
Consensus pattern (12 bp):
TTTCTTTTTCAA
Found at i:60804641 original size:18 final size:18
Alignment explanation
Indices: 60804607--60804647 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
60804597 CTCGATCTCG
**
60804607 ATTTCTTTTTCTTTTTCA
1 ATTTCTTTTTCAATTTCA
*
60804625 CTTTCTTTTTCAATTTCA
1 ATTTCTTTTTCAATTTCA
60804643 ATTTC
1 ATTTC
60804648 AATTTCATTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.15, C:0.20, G:0.00, T:0.66
Consensus pattern (18 bp):
ATTTCTTTTTCAATTTCA
Found at i:60817495 original size:19 final size:19
Alignment explanation
Indices: 60817473--60817530 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
60817463 AATTTAAGTA
60817473 ATATAATGTTATTTATATG
1 ATATAATGTTATTTATATG
* *
60817492 ATATGATG--A-TTATTATC
1 ATATAATGTTATTTA-TATG
60817509 AT-TAATGTTATTTATATG
1 ATATAATGTTATTTATATG
60817527 ATAT
1 ATAT
60817531 GAAGATTGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 10
0.68 0.09 0.23
Matches are distributed among these distances:
16 7 0.23
17 6 0.20
18 6 0.20
19 11 0.37
ACGTcount: A:0.36, C:0.02, G:0.10, T:0.52
Consensus pattern (19 bp):
ATATAATGTTATTTATATG
Found at i:60817515 original size:35 final size:35
Alignment explanation
Indices: 60817476--60817542 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
60817466 TTAAGTAATA
*
60817476 TAATGTTATTTATATGATATGATGATTATTATCAT
1 TAATGTTATTTATATGATATGAAGATTATTATCAT
*
60817511 TAATGTTATTTATATGATATGAAGATTGTTAT
1 TAATGTTATTTATATGATATGAAGATTATTAT
60817543 TATGAAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.34, C:0.01, G:0.13, T:0.51
Consensus pattern (35 bp):
TAATGTTATTTATATGATATGAAGATTATTATCAT
Found at i:60817930 original size:49 final size:49
Alignment explanation
Indices: 60817864--60818109 Score: 262
Period size: 49 Copynumber: 5.0 Consensus size: 49
60817854 GCTATTGTGA
* *
60817864 GGTCACATGTGTAGTACTAAGTGCAAGG-TACTACGTGTACCAGATTGTT
1 GGTCGCATGTGTAGTACTAAGTGC-AGGCTACTACGTGTACCAGATAGTT
* * * *
60817913 GGTTGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTA-ATAACTT
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACC-AGAT-AGTT
* * * * * *
60817963 CGATCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGGTT
1 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
* * * *
60818013 AGGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATAATT
1 -GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
* * *
60818063 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTAACAGATAG
1 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAG
60818110 CTTCAGCTAC
Statistics
Matches: 163, Mismatches: 29, Indels: 10
0.81 0.14 0.05
Matches are distributed among these distances:
48 3 0.02
49 75 0.46
50 49 0.30
51 36 0.22
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (49 bp):
GGTCGCATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAGTT
Found at i:60818054 original size:101 final size:98
Alignment explanation
Indices: 60817866--60818095 Score: 293
Period size: 100 Copynumber: 2.3 Consensus size: 98
60817856 TATTGTGAGG
* * **
60817866 TCACATGTGTAGTACTAAGTGCAAGG-TACTACGTGTACCAGATTGTTGGTTGCATGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGC-AGGCTACTACGTGTACCAAATGGTTGGTCACATGTGTAGTAC
*
60817930 TAAGTGCAGGCTACTATGCGTACCTA-ATAACTTCGA
65 TAAGTGCAGGCTACTACGCGTACC-AGATAA-TT-GA
* * *
60817966 TCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAAATGGTTAGGTCACGTGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATGGTT-GGTCACATGTGTAGTAC
* * *
60818031 TAAGTGTAGGCTACTACGTGTACCAGATAATTGG
65 TAAGTGCAGGCTACTACGCGTACCAGATAATTGA
*
60818065 TCGCATGTGTAGTACTAAGTGCAGGCTACTA
1 TCACATGTGTAGTACTAAGTGCAGGCTACTA
60818096 TGCGTAACAG
Statistics
Matches: 114, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
99 33 0.29
100 42 0.37
101 39 0.34
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.30
Consensus pattern (98 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATGGTTGGTCACATGTGTAGTACT
AAGTGCAGGCTACTACGCGTACCAGATAATTGA
Found at i:60820967 original size:20 final size:21
Alignment explanation
Indices: 60820929--60820977 Score: 64
Period size: 20 Copynumber: 2.4 Consensus size: 21
60820919 TGAGCTAGAT
*
60820929 CGAGCTGAATTCTAGCTCAAA
1 CGAGCTGAATTCGAGCTCAAA
*
60820950 CGAGCTGAA-TCGAGCTCAAG
1 CGAGCTGAATTCGAGCTCAAA
*
60820970 TGAGCTGA
1 CGAGCTGA
60820978 TGGGAGCTGA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
20 16 0.64
21 9 0.36
ACGTcount: A:0.31, C:0.22, G:0.27, T:0.20
Consensus pattern (21 bp):
CGAGCTGAATTCGAGCTCAAA
Found at i:60823280 original size:19 final size:20
Alignment explanation
Indices: 60823256--60823296 Score: 75
Period size: 19 Copynumber: 2.1 Consensus size: 20
60823246 TTTTTCATTT
60823256 TCTTTTCTTTGTTT-TTCTC
1 TCTTTTCTTTGTTTCTTCTC
60823275 TCTTTTCTTTGTTTCTTCTC
1 TCTTTTCTTTGTTTCTTCTC
60823295 TC
1 TC
60823297 GATTTCATTC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.67
20 7 0.33
ACGTcount: A:0.00, C:0.24, G:0.05, T:0.71
Consensus pattern (20 bp):
TCTTTTCTTTGTTTCTTCTC
Found at i:60824259 original size:19 final size:20
Alignment explanation
Indices: 60824234--60824282 Score: 82
Period size: 20 Copynumber: 2.5 Consensus size: 20
60824224 ATCACACACT
*
60824234 TTTTTTTAATTTCGTCTATA
1 TTTTTTTAATTTCGTATATA
60824254 TTTTTTTAATTTCGTATAT-
1 TTTTTTTAATTTCGTATATA
60824273 TTTTTTTAAT
1 TTTTTTTAAT
60824283 ACTTCACAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
19 10 0.36
20 18 0.64
ACGTcount: A:0.20, C:0.06, G:0.04, T:0.69
Consensus pattern (20 bp):
TTTTTTTAATTTCGTATATA
Found at i:60828898 original size:93 final size:93
Alignment explanation
Indices: 60828739--60828909 Score: 290
Period size: 93 Copynumber: 1.8 Consensus size: 93
60828729 GGATGGTTGA
*
60828739 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGTCCGAACTCGTTGAGT
60828804 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
60828832 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CTCGAGCTCGTTGAG
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGTC-CGAACTCGTTGAG
*
60828896 TTGAGTCTGAGTTC
65 TTGAGTCCGAGTTC
60828910 ACTTAGGGGC
Statistics
Matches: 73, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
92 1 0.01
93 72 0.99
ACGTcount: A:0.21, C:0.21, G:0.29, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGTCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:60828912 original size:46 final size:47
Alignment explanation
Indices: 60828742--60828914 Score: 205
Period size: 46 Copynumber: 3.7 Consensus size: 47
60828732 TGGTTGAGCA
* *
60828742 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATG-
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
60828788 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
60828834 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 -TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* *
60828882 T-CGAGCTCGTTGAGTTGAGTCTGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
60828915 GGGGCGGGTT
Statistics
Matches: 108, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 2 0.02
46 59 0.55
47 30 0.28
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.29
Consensus pattern (47 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:60843977 original size:93 final size:93
Alignment explanation
Indices: 60843818--60843988 Score: 306
Period size: 93 Copynumber: 1.8 Consensus size: 93
60843808 GGATGGTTGA
* *
60843818 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
60843883 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
60843911 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
60843976 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
60843989 ACTTCGGGGT
Statistics
Matches: 74, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 74 1.00
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:60843991 original size:46 final size:46
Alignment explanation
Indices: 60843822--60843992 Score: 206
Period size: 46 Copynumber: 3.7 Consensus size: 46
60843812 GGTTGAGCAT
* * *
60843822 CCGAACTCGTTGAGTTGAGTCCGAGTTCACCTATGGATGCGAATGT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
* * *
60843868 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAC---GC
60843913 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
*
60843961 CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTT
60843993 CGGGGTGGGT
Statistics
Matches: 106, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
45 2 0.02
46 59 0.56
47 28 0.26
48 4 0.04
50 4 0.04
51 3 0.03
ACGTcount: A:0.21, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGC
Found at i:60847273 original size:30 final size:30
Alignment explanation
Indices: 60847237--60847294 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
60847227 CTCGAGCCTA
60847237 GGGGCAAAA-GTGTAATTATGCAAAAGTTTG
1 GGGGCAAAATG-GTAATTATGCAAAAGTTTG
* *
60847267 GGGGCAAAATGGTAATTTTGCCAAAGTT
1 GGGGCAAAATGGTAATTATGCAAAAGTT
60847295 CGTATTAAAG
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 24 0.96
31 1 0.04
ACGTcount: A:0.34, C:0.09, G:0.29, T:0.28
Consensus pattern (30 bp):
GGGGCAAAATGGTAATTATGCAAAAGTTTG
Found at i:60847506 original size:19 final size:19
Alignment explanation
Indices: 60847484--60847541 Score: 61
Period size: 19 Copynumber: 3.2 Consensus size: 19
60847474 AATTTAAGTA
60847484 ATATAATGTTATTTATATG
1 ATATAATGTTATTTATATG
* *
60847503 ATATGATG--A-TTATTATC
1 ATATAATGTTATTTA-TATG
60847520 AT-TAATGTTATTTATATG
1 ATATAATGTTATTTATATG
60847538 ATAT
1 ATAT
60847542 GAAGATTGTT
Statistics
Matches: 30, Mismatches: 4, Indels: 10
0.68 0.09 0.23
Matches are distributed among these distances:
16 7 0.23
17 6 0.20
18 6 0.20
19 11 0.37
ACGTcount: A:0.36, C:0.02, G:0.10, T:0.52
Consensus pattern (19 bp):
ATATAATGTTATTTATATG
Found at i:60847526 original size:35 final size:35
Alignment explanation
Indices: 60847487--60847553 Score: 116
Period size: 35 Copynumber: 1.9 Consensus size: 35
60847477 TTAAGTAATA
*
60847487 TAATGTTATTTATATGATATGATGATTATTATCAT
1 TAATGTTATTTATATGATATGAAGATTATTATCAT
*
60847522 TAATGTTATTTATATGATATGAAGATTGTTAT
1 TAATGTTATTTATATGATATGAAGATTATTAT
60847554 TATGAAATAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
35 30 1.00
ACGTcount: A:0.34, C:0.01, G:0.13, T:0.51
Consensus pattern (35 bp):
TAATGTTATTTATATGATATGAAGATTATTATCAT
Found at i:60850757 original size:39 final size:39
Alignment explanation
Indices: 60850609--60850775 Score: 183
Period size: 40 Copynumber: 4.2 Consensus size: 39
60850599 CTAAGATCCT
* * * *
60850609 AAGGCATTTGTGCGAGATAC-AAATTCCAGGTTAAGCCCCG
1 AAGGCA-TTGTGCGAGTTACTAAA-TCCGGGTTATGTCCCG
* * *
60850649 AAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCG
1 AAGG-CATTGTGCGAGTTACTAAATCCGGGTTATGTCCCG
* *
60850689 AAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCA
1 AAGGCATT-GTGCGAGTTACTAAATCCGGGTTATGTCCCG
* * *
60850729 AAGGCATTGTGTGAGTTACTAAAACCGGGCTATGTCCCG
1 AAGGCATTGTGCGAGTTACTAAATCCGGGTTATGTCCCG
60850768 AAGGCATT
1 AAGGCATT
60850776 TGAACGAGGA
Statistics
Matches: 111, Mismatches: 13, Indels: 7
0.85 0.10 0.05
Matches are distributed among these distances:
39 37 0.33
40 70 0.63
41 4 0.04
ACGTcount: A:0.27, C:0.21, G:0.26, T:0.26
Consensus pattern (39 bp):
AAGGCATTGTGCGAGTTACTAAATCCGGGTTATGTCCCG
Found at i:60858632 original size:80 final size:79
Alignment explanation
Indices: 60858548--60858719 Score: 211
Period size: 79 Copynumber: 2.2 Consensus size: 79
60858538 GGACTAAGAT
* *
60858548 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGACGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
60858612 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
60858628 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
60858693 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
60858707 CCGAAGGCATTTG
1 CCGAAGGCATTTG
60858720 AACGAGGAGC
Statistics
Matches: 78, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
79 38 0.49
80 37 0.47
81 3 0.04
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:60858699 original size:39 final size:39
Alignment explanation
Indices: 60858495--60858717 Score: 200
Period size: 40 Copynumber: 5.6 Consensus size: 39
60858485 TTGAATGCTG
* * * * *
60858495 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
60858535 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* * *
60858574 TTCCGGGTTAAGCCCCGACGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* *
60858615 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
60858655 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
60858694 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
60858718 TGAACGAGGA
Statistics
Matches: 155, Mismatches: 20, Indels: 17
0.81 0.10 0.09
Matches are distributed among these distances:
39 40 0.26
40 101 0.65
41 13 0.08
42 1 0.01
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:60864430 original size:49 final size:49
Alignment explanation
Indices: 60864364--60864603 Score: 268
Period size: 49 Copynumber: 4.9 Consensus size: 49
60864354 GCTATTGTGA
* * *
60864364 GGTCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAAATTGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAAATTGTT
* * *
60864413 GGTCGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCTGATAACT-TT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACC--A-AATTGTT
* * * *
60864464 GATCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAAATGGTT
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAAATTGTT
* * ** **
60864513 AGGTCACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATT
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAAATTGTT
* *
60864563 GGTCGCATGTGTAGTACTAAGTGCAGG-TACTATGCGTACCA
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCA
60864604 GATAGCTTCA
Statistics
Matches: 161, Mismatches: 25, Indels: 11
0.82 0.13 0.06
Matches are distributed among these distances:
48 13 0.08
49 64 0.40
50 42 0.26
51 39 0.24
52 3 0.02
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.30
Consensus pattern (49 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAAATTGTT
Found at i:60864500 original size:26 final size:26
Alignment explanation
Indices: 60864471--60864552 Score: 66
Period size: 26 Copynumber: 3.2 Consensus size: 26
60864461 TTTGATCACG
60864471 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
* * *
60864497 TGTGTA-T-C-AAATGGTTAGG-TCAC-G
1 TGTGTAGTACTAAGT-G-CAGGCT-ACTA
60864521 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
*
60864547 CGTGTA
1 TGTGTA
60864553 CCGGATAATT
Statistics
Matches: 41, Mismatches: 7, Indels: 16
0.64 0.11 0.25
Matches are distributed among these distances:
23 3 0.07
24 9 0.22
25 12 0.29
26 14 0.34
27 3 0.07
ACGTcount: A:0.26, C:0.15, G:0.28, T:0.32
Consensus pattern (26 bp):
TGTGTAGTACTAAGTGCAGGCTACTA
Found at i:60864625 original size:101 final size:100
Alignment explanation
Indices: 60864366--60864625 Score: 269
Period size: 101 Copynumber: 2.6 Consensus size: 100
60864356 TATTGTGAGG
* * * * * *
60864366 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAAATTG-TT-GGTCGCA-TGTGTAGT
1 TCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAAA-TGCTTAGCTC-AAGTGTGTAGT
* *
60864428 ACTAAGTGCAGGCTACTATGCGTACCTGATAACTTTGA
64 ACTAAGTGCAGGCTACTACGCGTACCGGATAAC-TTGA
* * * * * *
60864466 TCACGTGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAAATGGTTAGGTCACGTGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAAATGCTTAGCTCAAGTGTGTAGTAC
* *
60864531 TAAGTGCAGGCTACTACGTGTACCGGATAA-TTGG
66 TAAGTGCAGGCTACTACGCGTACCGGATAACTTGA
* *
60864565 TCGCATGTGTAGTACTAAGTGCAGG-TACTATGCGTACCAGATAGCTTCAGCTACAAGTGTG
1 TCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAAAT-GCTT-AGCT-CAAGTGTG
60864626 GAAATGAGAA
Statistics
Matches: 137, Mismatches: 17, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
98 14 0.10
99 31 0.23
100 44 0.32
101 48 0.35
ACGTcount: A:0.25, C:0.18, G:0.27, T:0.30
Consensus pattern (100 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTATGCGTACCAAATGCTTAGCTCAAGTGTGTAGTAC
TAAGTGCAGGCTACTACGCGTACCGGATAACTTGA
Found at i:60867098 original size:30 final size:31
Alignment explanation
Indices: 60867040--60867098 Score: 84
Period size: 30 Copynumber: 1.9 Consensus size: 31
60867030 ATGGAAAAAG
* *
60867040 AAATGAGCTGGAAAGAAGCTAAATTGAGCTC
1 AAATGAGCTGGAAACAAGCTAAAGTGAGCTC
*
60867071 AAATGAGCT-GAAACAAGCTCAAGTGAGC
1 AAATGAGCTGGAAACAAGCTAAAGTGAGC
60867099 AGATTGGAGC
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
30 16 0.64
31 9 0.36
ACGTcount: A:0.42, C:0.15, G:0.25, T:0.17
Consensus pattern (31 bp):
AAATGAGCTGGAAACAAGCTAAAGTGAGCTC
Found at i:60870333 original size:17 final size:17
Alignment explanation
Indices: 60870313--60870345 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
60870303 CTATAAGCAC
60870313 AATTAAACAAGTTAAAT
1 AATTAAACAAGTTAAAT
60870330 AATTAAACAAGTTAAA
1 AATTAAACAAGTTAAA
60870346 CGGCTGTAGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.27
Consensus pattern (17 bp):
AATTAAACAAGTTAAAT
Found at i:60873807 original size:14 final size:14
Alignment explanation
Indices: 60873760--60873807 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
60873750 GTACAAATTG
*
60873760 AATGGTAGGAACGA
1 AATGGTAGGAACAA
*
60873774 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
*
60873788 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
60873802 ATTGGT
1 AATGGT
60873808 CGGTTTAGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.31, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:60876461 original size:40 final size:40
Alignment explanation
Indices: 60876366--60876623 Score: 364
Period size: 40 Copynumber: 6.5 Consensus size: 40
60876356 TGGATGATAA
*
60876366 CCGGGCTAAGTCCCGAAGGCATTT-TGCGCTAGTGACTAGT-T
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCG--AGTTACTA-TAT
* *
60876407 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTATTACAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
60876447 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
60876487 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
*
60876527 CCGGGCTAAGTCCCGAAGGCATTGGTGCGAGTTACTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
* * *
60876567 CCAGGCTATGTCCCGAAGGCA-TTGAGCGAG-TAGCTATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATAT
* *
60876606 CCGGTC-AAATCCCGAAGG
1 CCGGGCTAAGTCCCGAAGG
60876624 TACTTGGCTT
Statistics
Matches: 200, Mismatches: 14, Indels: 9
0.90 0.06 0.04
Matches are distributed among these distances:
38 12 0.06
39 17 0.09
40 143 0.71
41 24 0.12
42 4 0.02
ACGTcount: A:0.23, C:0.24, G:0.28, T:0.25
Consensus pattern (40 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAT
Found at i:60883692 original size:9 final size:9
Alignment explanation
Indices: 60883678--60883725 Score: 60
Period size: 9 Copynumber: 5.0 Consensus size: 9
60883668 CATAAATCAC
60883678 TTTTTTTTA
1 TTTTTTTTA
60883687 TTTTTTTTA
1 TTTTTTTTA
*
60883696 TTTTTTTCGA
1 TTTTTTT-TA
60883706 TTTTATTTTTA
1 -TTT-TTTTTA
60883717 TTTTTTTTA
1 TTTTTTTTA
60883726 ACTTGTATAA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
9 22 0.65
10 4 0.12
11 4 0.12
12 4 0.12
ACGTcount: A:0.12, C:0.02, G:0.02, T:0.83
Consensus pattern (9 bp):
TTTTTTTTA
Found at i:60883906 original size:94 final size:94
Alignment explanation
Indices: 60883796--60883968 Score: 319
Period size: 94 Copynumber: 1.8 Consensus size: 94
60883786 GTACTCGATT
60883796 TTTTTTTTCAGCTGCGTAGATTTTTGTTTTTAGAGCAACAATAACAAACTAATCGAAATGAGAAA
1 TTTTTTTTCAGCTGCGTAGATTTTTGTTTTTAGAGCAACAATAACAAACTAATCGAAATGAGAAA
60883861 ACTTCAGTATACAAAAAAAAATTCTACTC
66 ACTTCAGTATACAAAAAAAAATTCTACTC
* *
60883890 TTTTTTTTCGGCTGCGTAGATTTTTGTTTTTATAGCAACAATAACAAACTAATCGAAATGAGAAA
1 TTTTTTTTCAGCTGCGTAGATTTTTGTTTTTAGAGCAACAATAACAAACTAATCGAAATGAGAAA
*
60883955 ACTTCGGTATACAA
66 ACTTCAGTATACAA
60883969 TTTTTTTTCT
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
94 76 1.00
ACGTcount: A:0.37, C:0.14, G:0.13, T:0.35
Consensus pattern (94 bp):
TTTTTTTTCAGCTGCGTAGATTTTTGTTTTTAGAGCAACAATAACAAACTAATCGAAATGAGAAA
ACTTCAGTATACAAAAAAAAATTCTACTC
Found at i:60884215 original size:14 final size:14
Alignment explanation
Indices: 60884168--60884215 Score: 60
Period size: 14 Copynumber: 3.4 Consensus size: 14
60884158 GTACGAATGG
*
60884168 AATGGTAGGAACGA
1 AATGGTAGGAACAA
*
60884182 AAGGGTAGGAACAA
1 AATGGTAGGAACAA
*
60884196 AATGGTATGAACAA
1 AATGGTAGGAACAA
*
60884210 ATTGGT
1 AATGGT
60884216 CGGTTTAGGT
Statistics
Matches: 29, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 29 1.00
ACGTcount: A:0.44, C:0.06, G:0.31, T:0.19
Consensus pattern (14 bp):
AATGGTAGGAACAA
Found at i:60889985 original size:12 final size:12
Alignment explanation
Indices: 60889968--60890023 Score: 78
Period size: 12 Copynumber: 4.7 Consensus size: 12
60889958 TATACAAGTC
60889968 AAAAAAAATTCG
1 AAAAAAAATTCG
**
60889980 AAAAAAAATTTA
1 AAAAAAAATTCG
60889992 AAAAAAAATTCG
1 AAAAAAAATTCG
60890004 AAAAAAAA-TCTG
1 AAAAAAAATTC-G
60890016 AAAAAAAA
1 AAAAAAAA
60890024 GTGTTTAATG
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
11 2 0.05
12 37 0.95
ACGTcount: A:0.73, C:0.05, G:0.05, T:0.16
Consensus pattern (12 bp):
AAAAAAAATTCG
Found at i:60889999 original size:24 final size:24
Alignment explanation
Indices: 60889968--60890023 Score: 94
Period size: 24 Copynumber: 2.3 Consensus size: 24
60889958 TATACAAGTC
*
60889968 AAAAAAAATTCGAAAAAAAATTTA
1 AAAAAAAATTCGAAAAAAAATCTA
*
60889992 AAAAAAAATTCGAAAAAAAATCTG
1 AAAAAAAATTCGAAAAAAAATCTA
60890016 AAAAAAAA
1 AAAAAAAA
60890024 GTGTTTAATG
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
24 30 1.00
ACGTcount: A:0.73, C:0.05, G:0.05, T:0.16
Consensus pattern (24 bp):
AAAAAAAATTCGAAAAAAAATCTA
Found at i:60890967 original size:6 final size:5
Alignment explanation
Indices: 60890943--60890999 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
60890933 AAGAGAAAAT
*
60890943 AAAGA AAAGA AAAGAA AAAGCA AAAGA AGA-A AAAGAA AAAGA AATA-A
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAG-A AAAGA AA-AGA
60890990 AAAGA AAAGA
1 AAAGA AAAGA
60891000 GAGGAAAGAG
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
4 4 0.09
5 24 0.55
6 16 0.36
ACGTcount: A:0.79, C:0.02, G:0.18, T:0.02
Consensus pattern (5 bp):
AAAGA
Found at i:60890992 original size:25 final size:25
Alignment explanation
Indices: 60890947--60890995 Score: 64
Period size: 27 Copynumber: 1.9 Consensus size: 25
60890937 GAAAATAAAG
60890947 AAAAGAAAAGAAAAAGCAAAAGAAGA
1 AAAAGAAAAGAAAAA-CAAAAGAAGA
*
60890973 AAAAGAAAAAGAAATA-AAAAGAA
1 AAAAG-AAAAGAAAAACAAAAGAA
60890996 AAGAGAGGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
25 7 0.33
26 5 0.24
27 9 0.43
ACGTcount: A:0.80, C:0.02, G:0.16, T:0.02
Consensus pattern (25 bp):
AAAAGAAAAGAAAAACAAAAGAAGA
Found at i:60891079 original size:11 final size:12
Alignment explanation
Indices: 60891047--60891077 Score: 53
Period size: 12 Copynumber: 2.6 Consensus size: 12
60891037 TTGAGAGAAC
*
60891047 TTGAAAAAGCCT
1 TTGAAAAAGCCG
60891059 TTGAAAAAGCCG
1 TTGAAAAAGCCG
60891071 TTGAAAA
1 TTGAAAA
60891078 GCAAAAAGAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.45, C:0.13, G:0.19, T:0.23
Consensus pattern (12 bp):
TTGAAAAAGCCG
Found at i:60893372 original size:30 final size:30
Alignment explanation
Indices: 60893286--60893373 Score: 79
Period size: 30 Copynumber: 2.9 Consensus size: 30
60893276 CTAACTCACT
* *
60893286 TTCAACTCACGAGCTAAACCTTAGCTCAAC
1 TTCAGCTCACGAGCTAAAGCTTAGCTCAAC
* * ** *
60893316 TTCAGCTTAGGAG-TTTAGCCTCAGCTCAAC
1 TTCAGCTCACGAGCTAAAG-CTTAGCTCAAC
* *
60893346 TTTAGCTCATGAGCTAAAGCTTAGCTCA
1 TTCAGCTCACGAGCTAAAGCTTAGCTCA
60893374 TTTTAGTTTA
Statistics
Matches: 43, Mismatches: 13, Indels: 4
0.72 0.22 0.07
Matches are distributed among these distances:
29 2 0.05
30 38 0.88
31 3 0.07
ACGTcount: A:0.28, C:0.27, G:0.16, T:0.28
Consensus pattern (30 bp):
TTCAGCTCACGAGCTAAAGCTTAGCTCAAC
Found at i:60895968 original size:10 final size:10
Alignment explanation
Indices: 60895953--60895999 Score: 53
Period size: 10 Copynumber: 4.7 Consensus size: 10
60895943 ATAAATCACT
60895953 TTTTTTTCGA
1 TTTTTTTCGA
60895963 TTTTTTT--A
1 TTTTTTTCGA
60895971 TTTTTTTTCGA
1 -TTTTTTTCGA
*
60895982 TTTTTTTTGAA
1 TTTTTTTCG-A
60895993 TTTTTTT
1 TTTTTTT
60896000 TAACTTGTAT
Statistics
Matches: 32, Mismatches: 1, Indels: 7
0.80 0.03 0.17
Matches are distributed among these distances:
8 1 0.03
9 7 0.22
10 15 0.47
11 9 0.28
ACGTcount: A:0.11, C:0.04, G:0.06, T:0.79
Consensus pattern (10 bp):
TTTTTTTCGA
Found at i:60895968 original size:11 final size:10
Alignment explanation
Indices: 60895952--60896000 Score: 57
Period size: 11 Copynumber: 4.8 Consensus size: 10
60895942 CATAAATCAC
60895952 TTTTTTTTCGA
1 TTTTTTTT-GA
60895963 -TTTTTTT-A
1 TTTTTTTTGA
60895971 TTTTTTTTCGA
1 TTTTTTTT-GA
60895982 TTTTTTTTGAA
1 TTTTTTTTG-A
60895993 TTTTTTTT
1 TTTTTTTT
60896001 AACTTGTATA
Statistics
Matches: 34, Mismatches: 0, Indels: 8
0.81 0.00 0.19
Matches are distributed among these distances:
8 1 0.03
9 7 0.21
10 8 0.24
11 18 0.53
ACGTcount: A:0.10, C:0.04, G:0.06, T:0.80
Consensus pattern (10 bp):
TTTTTTTTGA
Found at i:60895976 original size:19 final size:19
Alignment explanation
Indices: 60895952--60895988 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
60895942 CATAAATCAC
60895952 TTTTTTTTCGATTTTTTTA
1 TTTTTTTTCGATTTTTTTA
60895971 TTTTTTTTCGATTTTTTT
1 TTTTTTTTCGATTTTTTT
60895989 TGAATTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.08, C:0.05, G:0.05, T:0.81
Consensus pattern (19 bp):
TTTTTTTTCGATTTTTTTA
Found at i:60895996 original size:19 final size:19
Alignment explanation
Indices: 60895955--60895997 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
60895945 AAATCACTTT
**
60895955 TTTTTCGATTTTTTTATTT
1 TTTTTCGATTTTTTTATAA
60895974 TTTTTCGATTTTTTT-TGAA
1 TTTTTCGATTTTTTTAT-AA
60895993 TTTTT
1 TTTTT
60895998 TTTAACTTGT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
18 1 0.05
19 20 0.95
ACGTcount: A:0.12, C:0.05, G:0.07, T:0.77
Consensus pattern (19 bp):
TTTTTCGATTTTTTTATAA
Found at i:60899538 original size:16 final size:16
Alignment explanation
Indices: 60899519--60899549 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
60899509 TTTGAGATAG
60899519 AAATAATTATTTTATA
1 AAATAATTATTTTATA
60899535 AAATAATTATTTTAT
1 AAATAATTATTTTAT
60899550 TATTATTTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (16 bp):
AAATAATTATTTTATA
Found at i:60899549 original size:21 final size:21
Alignment explanation
Indices: 60899525--60899568 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
60899515 ATAGAAATAA
60899525 TTATT-TTATAAAATAATTATT
1 TTATTATTAT-AAATAATTATT
**
60899546 TTATTATTATTTATAATTATT
1 TTATTATTATAAATAATTATT
60899567 TT
1 TT
60899569 GAGGTCTATG
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 16 0.80
22 4 0.20
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
TTATTATTATAAATAATTATT
Found at i:60905197 original size:30 final size:30
Alignment explanation
Indices: 60905163--60905260 Score: 81
Period size: 30 Copynumber: 3.3 Consensus size: 30
60905153 AGCTCACTCC
60905163 TAGCTCATATTCAGCTCACGAGCTAAACCT
1 TAGCTCATATTCAGCTCACGAGCTAAACCT
** * * * * *
60905193 TAGCTCAGCTTCAGCTTAGGAGTTTAATCT
1 TAGCTCATATTCAGCTCACGAGCTAAACCT
* * * *
60905223 CAGCTCA-ACTTTAGCTCATGAGCTAAAGCT
1 TAGCTCATA-TTCAGCTCACGAGCTAAACCT
60905253 TAGCTCAT
1 TAGCTCAT
60905261 TTTAGTTTAA
Statistics
Matches: 50, Mismatches: 16, Indels: 3
0.72 0.23 0.04
Matches are distributed among these distances:
30 50 1.00
ACGTcount: A:0.28, C:0.26, G:0.16, T:0.31
Consensus pattern (30 bp):
TAGCTCATATTCAGCTCACGAGCTAAACCT
Found at i:60905462 original size:79 final size:79
Alignment explanation
Indices: 60905331--60905491 Score: 313
Period size: 79 Copynumber: 2.0 Consensus size: 79
60905321 GCATTAAACT
60905331 TGTCTTATATTAATATTTGTTATTAATATGTCATAGATATCACATAACTTAAATGTGTTCACATT
1 TGTCTTATATTAATATTTGTTATTAATATGTCATAGATATCACATAACTTAAATGTGTTCACATT
60905396 ATGCTGAATTTATG
66 ATGCTGAATTTATG
60905410 TGTCTTATATTAATATTTGTTATTAATATGTCATAGATATCACATAACTTAAATGTGTTCACATT
1 TGTCTTATATTAATATTTGTTATTAATATGTCATAGATATCACATAACTTAAATGTGTTCACATT
*
60905475 GTGCTGAATTTATG
66 ATGCTGAATTTATG
60905489 TGT
1 TGT
60905492 GTTCACATGA
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
79 81 1.00
ACGTcount: A:0.32, C:0.10, G:0.12, T:0.46
Consensus pattern (79 bp):
TGTCTTATATTAATATTTGTTATTAATATGTCATAGATATCACATAACTTAAATGTGTTCACATT
ATGCTGAATTTATG
Found at i:60908629 original size:21 final size:21
Alignment explanation
Indices: 60908603--60908665 Score: 90
Period size: 21 Copynumber: 3.0 Consensus size: 21
60908593 TTGGTATTTG
60908603 GGAATTGGTACGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
*
60908624 GGAATTGGTATGAAATGGTAT
1 GGAATTGGTACGAAATGGTAT
* *
60908645 GGTATTTGGTACGAATTGGTA
1 GG-AATTGGTACGAAATGGTA
60908666 ATGGTTCAAA
Statistics
Matches: 37, Mismatches: 4, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
21 22 0.59
22 15 0.41
ACGTcount: A:0.30, C:0.03, G:0.33, T:0.33
Consensus pattern (21 bp):
GGAATTGGTACGAAATGGTAT
Found at i:60911225 original size:40 final size:40
Alignment explanation
Indices: 60911170--60911367 Score: 276
Period size: 40 Copynumber: 5.0 Consensus size: 40
60911160 TGATAACAGT
* *
60911170 GCTAAGTCCCGAAGGCATTTGTGCTAGTTACTA-ATTCGGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGG
*
60911210 GCTAAGTCCCGAAGGCATTTGTACGAGTTACTA-ATTCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCCGG
*
60911250 GCTAAGCCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
**
60911290 GCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
* *
60911330 GCTAAGTCCTGAAGGCATTTGAGCGAG-TAGCTATATCC
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
60911368 AGTTAAATCC
Statistics
Matches: 145, Mismatches: 11, Indels: 4
0.91 0.07 0.03
Matches are distributed among these distances:
39 2 0.01
40 142 0.98
41 1 0.01
ACGTcount: A:0.24, C:0.23, G:0.26, T:0.27
Consensus pattern (40 bp):
GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
Found at i:60919403 original size:40 final size:39
Alignment explanation
Indices: 60919209--60919408 Score: 251
Period size: 40 Copynumber: 5.0 Consensus size: 39
60919199 TGATAACGGT
* *
60919209 GCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTCTGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGT-ACTATA-TCCGG
* *
60919249 GCTAAGTCCAGAAGGCATTTGTGCGAGTTACTA-ATTACGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATA-TCCGG
60919289 GCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAG-TACTATATCCGG
* *
60919329 GCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATCCAG
1 GCTAAGTCCCGAAGGCATTTGTGCG-AGTACTATATCCGG
* *
60919369 ACTAAGTCCCGAAGGCATTTGAGCGAGTAGCTATATCCGG
1 GCTAAGTCCCGAAGGCATTTGTGCGAGTA-CTATATCCGG
60919409 TTAAATCCCA
Statistics
Matches: 144, Mismatches: 12, Indels: 8
0.88 0.07 0.05
Matches are distributed among these distances:
39 3 0.02
40 138 0.96
41 3 0.02
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (39 bp):
GCTAAGTCCCGAAGGCATTTGTGCGAGTACTATATCCGG
Found at i:60921133 original size:19 final size:19
Alignment explanation
Indices: 60921109--60921148 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
60921099 AGCTCCCATG
60921109 TAGCTCCACACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
***
60921128 TAGCTCGGGACCAGCTCAT
1 TAGCTCCACACCAGCTCAT
60921147 TA
1 TA
60921149 TCAGCTCACG
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.25, C:0.35, G:0.17, T:0.23
Consensus pattern (19 bp):
TAGCTCCACACCAGCTCAT
Found at i:60926328 original size:13 final size:13
Alignment explanation
Indices: 60926310--60926369 Score: 86
Period size: 13 Copynumber: 4.6 Consensus size: 13
60926300 ATACAAGTCC
*
60926310 AAAAAAAAATTTG
1 AAAAAAAAATTCG
*
60926323 AAAAAAAAATTCA
1 AAAAAAAAATTCG
60926336 AAAAAAAAATTCG
1 AAAAAAAAATTCG
60926349 -AAAAAAAATTCTG
1 AAAAAAAAATTC-G
60926362 AAAAAAAA
1 AAAAAAAA
60926370 GTGTTTAATG
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
12 11 0.26
13 24 0.57
14 7 0.17
ACGTcount: A:0.73, C:0.05, G:0.05, T:0.17
Consensus pattern (13 bp):
AAAAAAAAATTCG
Found at i:60926337 original size:25 final size:25
Alignment explanation
Indices: 60926310--60926369 Score: 84
Period size: 25 Copynumber: 2.4 Consensus size: 25
60926300 ATACAAGTCC
*
60926310 AAAAAAAAATTTGAAAAAAAAATTCA
1 AAAAAAAAATTCG-AAAAAAAATTCA
*
60926336 AAAAAAAAATTCGAAAAAAAATTCT
1 AAAAAAAAATTCGAAAAAAAATTCA
*
60926361 GAAAAAAAA
1 AAAAAAAAA
60926370 GTGTTTAATG
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
25 19 0.61
26 12 0.39
ACGTcount: A:0.73, C:0.05, G:0.05, T:0.17
Consensus pattern (25 bp):
AAAAAAAAATTCGAAAAAAAATTCA
Found at i:60927425 original size:30 final size:31
Alignment explanation
Indices: 60927391--60927472 Score: 96
Period size: 30 Copynumber: 2.7 Consensus size: 31
60927381 TTTGAAAAGC
*
60927391 AAAAAGAAAAACAAAAAGAAA-ATGAGATTG
1 AAAAAGAAAAACAAAAAGAAATATGAGAGTG
* *
60927421 AAAAAG-AGAACAAAAAGAAATTTGAGAGTG
1 AAAAAGAAAAACAAAAAGAAATATGAGAGTG
* **
60927451 AAAAAGAAGATGAAAAAGAAAT
1 AAAAAGAAAAACAAAAAGAAAT
60927473 TGAAACAAAA
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
29 13 0.29
30 19 0.42
31 13 0.29
ACGTcount: A:0.67, C:0.02, G:0.20, T:0.11
Consensus pattern (31 bp):
AAAAAGAAAAACAAAAAGAAATATGAGAGTG
Found at i:60929248 original size:20 final size:21
Alignment explanation
Indices: 60929225--60929272 Score: 55
Period size: 20 Copynumber: 2.4 Consensus size: 21
60929215 AGCTCCGTCC
60929225 AGCTCAACT-CAGCTCATTTG
1 AGCTCAACTCCAGCTCATTTG
** *
60929245 AGCTC-GTTCCAGCTCGTTTG
1 AGCTCAACTCCAGCTCATTTG
60929265 AGCTCAAC
1 AGCTCAAC
60929273 CGAGATTACT
Statistics
Matches: 21, Mismatches: 5, Indels: 3
0.72 0.17 0.10
Matches are distributed among these distances:
19 1 0.05
20 20 0.95
ACGTcount: A:0.21, C:0.31, G:0.19, T:0.29
Consensus pattern (21 bp):
AGCTCAACTCCAGCTCATTTG
Found at i:60931198 original size:30 final size:31
Alignment explanation
Indices: 60931164--60931259 Score: 101
Period size: 30 Copynumber: 3.2 Consensus size: 31
60931154 AGCAAAATCG
*
60931164 AGCTC-ACTTTCAACTCACGAGCTAAGCCTT
1 AGCTCAACTTTCAGCTCACGAGCTAAGCCTT
* * * * *
60931194 AGCTCAAC-TTCAGCTTAGGAGTTTAGCCTC
1 AGCTCAACTTTCAGCTCACGAGCTAAGCCTT
60931224 AGCTCAACTTT-AGCTCACGAGCTAAAG-CTT
1 AGCTCAACTTTCAGCTCACGAGCT-AAGCCTT
60931254 AGCTCA
1 AGCTCA
60931260 TTTTAGTTTA
Statistics
Matches: 52, Mismatches: 11, Indels: 6
0.75 0.16 0.09
Matches are distributed among these distances:
30 46 0.88
31 6 0.12
ACGTcount: A:0.27, C:0.29, G:0.17, T:0.27
Consensus pattern (31 bp):
AGCTCAACTTTCAGCTCACGAGCTAAGCCTT
Found at i:60940542 original size:27 final size:27
Alignment explanation
Indices: 60940504--60940817 Score: 391
Period size: 27 Copynumber: 11.6 Consensus size: 27
60940494 TTAGTTTACC
*
60940504 AAATTACCAAAATACCCCTAGATTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* * * * *
60940531 AAATCACTAAAATA-CCTTTGCTTTATA
1 AAATTACCAAAATACCCCTAG-TTTGTA
* *
60940558 AAATCACCAAAATACCCCTAATTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* **
60940585 AAATTACCAAAATACCCTTAGTTTACA
1 AAATTACCAAAATACCCCTAGTTTGTA
*
60940612 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* * *
60940639 AAATTACCAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTAGTTTGTA
60940666 AAATTACCAAAATACCCCT-GATTTGTA
1 AAATTACCAAAATACCCCTAG-TTTGTA
60940693 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
60940720 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTAGTTTGTA
* *
60940747 AAATTACCAAAATACCTCTAGTTTGTT
1 AAATTACCAAAATACCCCTAGTTTGTA
* *
60940774 AAAGTACCAAAATACCCCT-GATTTGTG
1 AAATTACCAAAATACCCCTAG-TTTGTA
**
60940801 AAATTACTGAAATACCC
1 AAATTACCAAAATACCC
60940818 TCGACCTGTA
Statistics
Matches: 249, Mismatches: 33, Indels: 10
0.85 0.11 0.03
Matches are distributed among these distances:
26 6 0.02
27 239 0.96
28 4 0.02
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.30
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTAGTTTGTA
Found at i:60940683 original size:108 final size:107
Alignment explanation
Indices: 60940494--60940818 Score: 470
Period size: 108 Copynumber: 3.0 Consensus size: 107
60940484 TTAGAATACT
* * * *
60940494 TTAGTTTACCAAATTACCAAAATACCCCTAGATTGTAAAATCACTAAAATACCTTTGCTTTATAA
1 TTAGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCTTTG-TTTATAA
* *
60940559 AATCACCAAAATACCCCTAATTTGTAAAATTACCAAAATACCC
65 AATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCC
*
60940602 TTAGTTTACAAAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTTGTTTATAA
1 TTAGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATA-CCTTTGTTTATAA
60940667 AATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCC
65 AATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCC
* ** * * *
60940710 CTAGTTTGTAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCTCTAGTTTGTTA
1 TTAGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCT-TTGTTTATAA
* * **
60940775 AAGTACCAAAATACCCCTGATTTGTGAAATTACTGAAATACCC
65 AATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCC
60940818 T
1 T
60940819 CGACCTGTAA
Statistics
Matches: 196, Mismatches: 19, Indels: 4
0.89 0.09 0.02
Matches are distributed among these distances:
107 3 0.02
108 187 0.95
109 6 0.03
ACGTcount: A:0.40, C:0.22, G:0.07, T:0.31
Consensus pattern (107 bp):
TTAGTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCTTTGTTTATAAA
ATTACCAAAATACCCCTGATTTGTAAAATTACCAAAATACCC
Found at i:60940828 original size:108 final size:106
Alignment explanation
Indices: 60940504--60940874 Score: 403
Period size: 108 Copynumber: 3.5 Consensus size: 106
60940494 TTAGTTTACC
* * * *
60940504 AAATTACCAAAATACCCCTAGATTGTAAAATCACTAAAATACCT-TTGCTTTATAAAATCACCAA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCTCTTG-TTTTTAAAAT-ACCAA
* * *
60940568 AATACCCCTAATTTGTAAAATTACCAAAATACCCT-TAGTTTACA
64 AATACCCCTGATTTGTAAAATTACCAAAATACCCTCTACTGT--A
* *
60940612 AAATTACCAAAATACCCCTGGTTTGTAAAATTACCAAAATACC-CTTTGTTTATAAAATTACCAA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCTC-TTGTTTTTAAAA-TACCAA
*
60940676 AATACCCCTGATTTGTAAAATTACCAAAATACCC-CTAGTTTGTA
64 AATACCCCTGATTTGTAAAATTACCAAAATACCCTCTA--CTGTA
* *
60940720 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCTCTAGTTTGTTAAAGTACCAAA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCTCTTGTTT-TTAAAATACCAAA
* ** *
60940785 ATACCCCTGATTTGTGAAATTACTGAAATACCCTCGACCTGTA
65 ATACCCCTGATTTGTAAAATTACCAAAATACCCTCTA-CTGTA
*** * * *
60940828 AAATTATTGAAATA-CCCTTGACTTGTAAAATTACCAAAGTACC-CTTG
1 AAATTACCAAAATACCCCTAG-TTTGTAAAATTACCAAAATACCTCTTG
60940875 ATTTACAGAA
Statistics
Matches: 229, Mismatches: 24, Indels: 21
0.84 0.09 0.08
Matches are distributed among these distances:
107 8 0.03
108 208 0.91
109 11 0.05
110 2 0.01
ACGTcount: A:0.40, C:0.22, G:0.08, T:0.30
Consensus pattern (106 bp):
AAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCTCTTGTTTTTAAAATACCAAAA
TACCCCTGATTTGTAAAATTACCAAAATACCCTCTACTGTA
Found at i:60940870 original size:27 final size:27
Alignment explanation
Indices: 60940504--60940878 Score: 366
Period size: 27 Copynumber: 13.9 Consensus size: 27
60940494 TTAGTTTACC
*
60940504 AAATTACCAAAATACCCCTAGA-TTGTA
1 AAATTACCAAAATA-CCCTTGATTTGTA
* * * * *
60940531 AAATCACTAAAATACCTTTGCTTTATA
1 AAATTACCAAAATACCCTTGATTTGTA
* * *
60940558 AAATCACCAAAATACCCCTAATTTGTA
1 AAATTACCAAAATACCCTTGATTTGTA
**
60940585 AAATTACCAAAATACCCTT-AGTTTACA
1 AAATTACCAAAATACCCTTGA-TTTGTA
* *
60940612 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCTTGATTTGTA
*
60940639 AAATTACCAAAATACCCTTTG-TTTATA
1 AAATTACCAAAATACCC-TTGATTTGTA
*
60940666 AAATTACCAAAATACCCCTGATTTGTA
1 AAATTACCAAAATACCCTTGATTTGTA
*
60940693 AAATTACCAAAATACCCCT-AGTTTGTA
1 AAATTACCAAAATACCCTTGA-TTTGTA
*
60940720 AAATTACCAAAATACCCCT-AGTTTGTA
1 AAATTACCAAAATACCCTTGA-TTTGTA
* *
60940747 AAATTACCAAAATACCTCTAG-TTTGTT
1 AAATTACCAAAATACC-CTTGATTTGTA
* * *
60940774 AAAGTACCAAAATACCCCTGATTTGTG
1 AAATTACCAAAATACCCTTGATTTGTA
** * **
60940801 AAATTACTGAAATACCCTCGACCTGTA
1 AAATTACCAAAATACCCTTGATTTGTA
*** *
60940828 AAATTATTGAAATACCCTTGACTTGTA
1 AAATTACCAAAATACCCTTGATTTGTA
*
60940855 AAATTACCAAAGTACCCTTGATTT
1 AAATTACCAAAATACCCTTGATTT
60940879 ACAGAATTAC
Statistics
Matches: 292, Mismatches: 47, Indels: 18
0.82 0.13 0.05
Matches are distributed among these distances:
26 10 0.03
27 279 0.96
28 3 0.01
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCTTGATTTGTA
Found at i:60940886 original size:27 final size:25
Alignment explanation
Indices: 60940585--60940928 Score: 94
Period size: 27 Copynumber: 12.8 Consensus size: 25
60940575 CTAATTTGTA
60940585 AAATTACCAAAATACCCTT-AGTTTAC
1 AAATTACC-AAATACCCTTGA-TTTAC
* *
60940611 AAAATTACCAAAATACCCCTGGTTTGTA-
1 -AAATTACC-AAATA-CCCTTGATT-TAC
*
60940639 AAATTACCAAAATACCCTTTG-TTTATA
1 AAATTACC-AAATACCC-TTGATTTA-C
*
60940666 AAATTACCAAAATACCCCTGATTTGTA-
1 AAATTACC-AAATACCCTTGA-TT-TAC
* *
60940693 AAATTACCAAAATACCCCTAGTTTGTA-
1 AAATTACC-AAATA-CCCTTGATT-TAC
* *
60940720 AAATTACCAAAATACCCCTAGTTTGTA-
1 AAATTACC-AAATA-CCCTTGATT-TAC
* **
60940747 AAATTACCAAAATACCTCTAG-TTTGTT
1 AAATTACC-AAATACC-CTTGATTT-AC
* * **
60940774 AAAGTACCAAAATACCCCTGATTTGTG
1 AAATTACC-AAATACCCTTGATTT-AC
* * *
60940801 AAATTACTGAAATACCCTCGACCTGTA-
1 AAATTAC-CAAATACCCTTGA--TTTAC
**
60940828 AAATTATTGAAATACCCTTGACTTGTA-
1 AAATTA-CCAAATACCCTTGA-TT-TAC
60940855 AAATTACCAAAGTACCCTTGATTTAC
1 AAATTACCAAA-TACCCTTGATTTAC
**** *
60940881 AGAATTACTGTTTTACCCTCGATTTAC
1 A-AATTAC-CAAATACCCTTGATTTAC
60940908 AAAATTACCGAAATACCCTTG
1 -AAATTACC-AAATACCCTTG
60940929 TAGGGTAGAA
Statistics
Matches: 259, Mismatches: 33, Indels: 50
0.76 0.10 0.15
Matches are distributed among these distances:
25 5 0.02
26 21 0.08
27 214 0.83
28 13 0.05
29 6 0.02
ACGTcount: A:0.38, C:0.22, G:0.09, T:0.31
Consensus pattern (25 bp):
AAATTACCAAATACCCTTGATTTAC
Found at i:60940943 original size:27 final size:27
Alignment explanation
Indices: 60940910--60941076 Score: 244
Period size: 27 Copynumber: 6.2 Consensus size: 27
60940900 CGATTTACAA
*
60940910 AATTACCGAAATACCCTTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
60940937 AAATACCGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
*
60940964 AATTACTGAAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
60940991 AATTATCGCAATACCCCTGTAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
* *
60941018 AATTACCGAAATGCCCCTATAGGGTAG
1 AATTACCGAAATACCCCTGTAGGGTAG
** *
60941045 AATTACTAAAATACCCCTGTAGGGTGG
1 AATTACCGAAATACCCCTGTAGGGTAG
60941072 AATTA
1 AATTA
60941077 TCAAGATACC
Statistics
Matches: 124, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 124 1.00
ACGTcount: A:0.34, C:0.20, G:0.22, T:0.25
Consensus pattern (27 bp):
AATTACCGAAATACCCCTGTAGGGTAG
Found at i:60941574 original size:22 final size:22
Alignment explanation
Indices: 60941531--60941595 Score: 60
Period size: 22 Copynumber: 3.0 Consensus size: 22
60941521 TTAAAGCCTT
* * * *
60941531 CTGATTATGGCTTTTTGTCAAC
1 CTGAATATGGCTCTGTGCCAAC
60941553 CT-ACATATGGCTCTGTGCCAAC
1 CTGA-ATATGGCTCTGTGCCAAC
* *
60941575 CTGATTATGGCTGTGTGCCAA
1 CTGAATATGGCTCTGTGCCAA
60941596 ACGTATTTGC
Statistics
Matches: 35, Mismatches: 6, Indels: 4
0.78 0.13 0.09
Matches are distributed among these distances:
21 1 0.03
22 33 0.94
23 1 0.03
ACGTcount: A:0.20, C:0.23, G:0.22, T:0.35
Consensus pattern (22 bp):
CTGAATATGGCTCTGTGCCAAC
Found at i:60941790 original size:26 final size:27
Alignment explanation
Indices: 60941754--60941827 Score: 105
Period size: 27 Copynumber: 2.8 Consensus size: 27
60941744 ATTCTGTTAA
* *
60941754 GTGGCTTTGCCACATTATCTGT-TCTG
1 GTGGCTCTGCCACAATATCTGTATCTG
60941780 GTGGCTCTGCCACAATATCTGTATCTG
1 GTGGCTCTGCCACAATATCTGTATCTG
* *
60941807 GTGACTCTGTCACAATATCTG
1 GTGGCTCTGCCACAATATCTG
60941828 ATAACTTAGC
Statistics
Matches: 43, Mismatches: 4, Indels: 1
0.90 0.08 0.02
Matches are distributed among these distances:
26 20 0.47
27 23 0.53
ACGTcount: A:0.18, C:0.24, G:0.22, T:0.36
Consensus pattern (27 bp):
GTGGCTCTGCCACAATATCTGTATCTG
Found at i:60942002 original size:6 final size:6
Alignment explanation
Indices: 60941987--60942105 Score: 91
Period size: 6 Copynumber: 19.3 Consensus size: 6
60941977 ATTCTGTTAC
* * *
60941987 CTGATA CTGATT CTGATT TTGATT CTG-TT ACCTGATA CTGATT CTGATT
1 CTGATT CTGATT CTGATT CTGATT CTGATT --CTGATT CTGATT CTGATT
* * * *
60942036 TTGATT CTG-TT ACCTGATA CTGATT TTGATT CTGATT CTG-TCAC CTGATT
1 CTGATT CTGATT --CTGATT CTGATT CTGATT CTGATT CTGAT--T CTGATT
*
60942086 CTGATT TTGATT CTGATT CT
1 CTGATT CTGATT CTGATT CT
60942106 AGTTCTTATA
Statistics
Matches: 89, Mismatches: 15, Indels: 18
0.73 0.12 0.15
Matches are distributed among these distances:
5 5 0.06
6 72 0.81
7 9 0.10
8 3 0.03
ACGTcount: A:0.18, C:0.17, G:0.16, T:0.49
Consensus pattern (6 bp):
CTGATT
Found at i:60942015 original size:31 final size:31
Alignment explanation
Indices: 60941964--60942105 Score: 212
Period size: 31 Copynumber: 4.5 Consensus size: 31
60941954 TTGCATTCAC
*
60941964 ATTCTGATTTTTTATTCTGTTACCTGATACTG
1 ATTCTGA-TTTTGATTCTGTTACCTGATACTG
60941996 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
60942027 ATTCTGATTTTGATTCTGTTACCTGATACTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* * * *
60942058 ATTTTGATTCTGATTCTGTCACCTGATTCTG
1 ATTCTGATTTTGATTCTGTTACCTGATACTG
* *
60942089 ATTTTGATTCTGATTCT
1 ATTCTGATTTTGATTCT
60942106 AGTTCTTATA
Statistics
Matches: 105, Mismatches: 5, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
31 98 0.93
32 7 0.07
ACGTcount: A:0.18, C:0.16, G:0.15, T:0.51
Consensus pattern (31 bp):
ATTCTGATTTTGATTCTGTTACCTGATACTG
Found at i:60942083 original size:25 final size:24
Alignment explanation
Indices: 60942018--60942102 Score: 84
Period size: 25 Copynumber: 3.5 Consensus size: 24
60942008 ATTCTGTTAC
* *
60942018 CTGATACTGATTCTGATTTTGATT
1 CTGATTCTGATACTGATTTTGATT
60942042 CTG-TTACCTGATACTGATTTTGATT
1 CTGATT--CTGATACTGATTTTGATT
*
60942067 CTGATTCTG-TCACCTGATTCTGATT
1 CTGATTCTGAT-A-CTGATTTTGATT
*
60942092 TTGATTCTGAT
1 CTGATTCTGAT
60942103 TCTAGTTCTT
Statistics
Matches: 51, Mismatches: 4, Indels: 10
0.78 0.06 0.15
Matches are distributed among these distances:
23 2 0.04
24 7 0.14
25 39 0.76
26 3 0.06
ACGTcount: A:0.19, C:0.16, G:0.16, T:0.48
Consensus pattern (24 bp):
CTGATTCTGATACTGATTTTGATT
Found at i:60944850 original size:12 final size:12
Alignment explanation
Indices: 60944833--60944867 Score: 56
Period size: 11 Copynumber: 3.1 Consensus size: 12
60944823 TATACAAGTT
60944833 AAAAAAATCTGA
1 AAAAAAATCTGA
60944845 AAAAAAATC-GA
1 AAAAAAATCTGA
60944856 AAAAAAAT-TGA
1 AAAAAAATCTGA
60944867 A
1 A
60944868 GTGAAAACCT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
11 13 0.59
12 9 0.41
ACGTcount: A:0.71, C:0.06, G:0.09, T:0.14
Consensus pattern (12 bp):
AAAAAAATCTGA
Found at i:60946666 original size:13 final size:14
Alignment explanation
Indices: 60946648--60946676 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
60946638 TTGTTCATTT
60946648 CCCTTT-GTTCCTA
1 CCCTTTCGTTCCTA
60946661 CCCTTTCGTTCCTA
1 CCCTTTCGTTCCTA
60946675 CC
1 CC
60946677 ATTCCGTTTG
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
13 6 0.40
14 9 0.60
ACGTcount: A:0.07, C:0.45, G:0.07, T:0.41
Consensus pattern (14 bp):
CCCTTTCGTTCCTA
Found at i:60953611 original size:13 final size:13
Alignment explanation
Indices: 60953582--60953621 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 13
60953572 AATCGACCAA
*
60953582 TTTGTTCATATCCC
1 TTTGTTCCTA-CCC
60953596 TTTGTTCCTACCC
1 TTTGTTCCTACCC
60953609 TTTCGTTCCTACC
1 TTT-GTTCCTACC
60953622 ATTCCGTTCG
Statistics
Matches: 24, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
13 6 0.25
14 18 0.75
ACGTcount: A:0.10, C:0.35, G:0.07, T:0.47
Consensus pattern (13 bp):
TTTGTTCCTACCC
Found at i:60955672 original size:68 final size:65
Alignment explanation
Indices: 60955458--60955665 Score: 208
Period size: 64 Copynumber: 3.2 Consensus size: 65
60955448 ATATAGTTCG
* * * *
60955458 GCTCTCTTGTAC-ACATGGTGAACACTTAGTACCACCCATGTGACCTAGCCA-ATTTA-TCTCGT
1 GCTCTCTTGT-CTACATGGTGTACACTTAGTACCACCCATGCGACCTAGCTACATATATTCTCGT
60955520 A
65 A
* * * * * *
60955521 GCTCTCTTGTCTACATAGTGTCCTTCACTTGGAACCACGCATGCGACCTAGCTACATATA-TCCC
1 GCTCTCTTGTCTACAT-G-GT-GTACACTTAGTACCACCCATGCGACCTAGCTACATATATTCTC
60955585 GTA
63 GTA
* * *
60955588 GCTCTCTTGTCTACATGGTGTACACATAGTATCACCCATGCGACCTAGCTACATCATAATGTCTT
1 GCTCTCTTGTCTACATGGTGTACACTTAGTACCACCCATGCGACCTAGCTACAT-AT-AT-TCTC
60955653 GTA
63 GTA
60955656 GCTCTCTTGT
1 GCTCTCTTGT
60955666 ACACATGATG
Statistics
Matches: 117, Mismatches: 19, Indels: 13
0.79 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 14 0.12
64 29 0.25
65 6 0.05
66 26 0.22
67 26 0.22
68 15 0.13
ACGTcount: A:0.23, C:0.29, G:0.16, T:0.32
Consensus pattern (65 bp):
GCTCTCTTGTCTACATGGTGTACACTTAGTACCACCCATGCGACCTAGCTACATATATTCTCGTA
Found at i:60965748 original size:30 final size:30
Alignment explanation
Indices: 60965714--60965774 Score: 86
Period size: 30 Copynumber: 2.0 Consensus size: 30
60965704 TCCTTAAATC
60965714 AAACTTTTGAAAAATTACAATTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
* * * *
60965744 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGAAAAATTACAATTTTGCCCCT
60965774 A
1 A
60965775 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTTGAAAAATTACAATTTTGCCCCT
Found at i:60972629 original size:9 final size:10
Alignment explanation
Indices: 60972622--60972678 Score: 55
Period size: 11 Copynumber: 5.5 Consensus size: 10
60972612 ACGAGAAAAC
60972622 AAAGAAAAGA
1 AAAGAAAAGA
60972632 AAAGAAAAAGCA
1 AAAG-AAAAG-A
*
60972644 AAAGAAGA-A
1 AAAGAAAAGA
60972653 AAAGAAAATGA
1 AAAGAAAA-GA
60972664 AATA-AAAAGA
1 AA-AGAAAAGA
60972674 AAAGA
1 AAAGA
60972679 GAGGCAAAAG
Statistics
Matches: 39, Mismatches: 2, Indels: 12
0.74 0.04 0.23
Matches are distributed among these distances:
9 9 0.23
10 9 0.23
11 15 0.38
12 6 0.15
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (10 bp):
AAAGAAAAGA
Found at i:60972646 original size:6 final size:5
Alignment explanation
Indices: 60972622--60972678 Score: 55
Period size: 5 Copynumber: 11.0 Consensus size: 5
60972612 ACGAGAAAAC
*
60972622 AAAGA AAAGA AAAGAA AAAGCA AAAGA AGA-A AAAGA AAATGA AATA-A
1 AAAGA AAAGA AAAG-A AAAG-A AAAGA AAAGA AAAGA AAA-GA AA-AGA
60972669 AAAGA AAAGA
1 AAAGA AAAGA
60972679 GAGGCAAAAG
Statistics
Matches: 44, Mismatches: 3, Indels: 10
0.77 0.05 0.18
Matches are distributed among these distances:
4 4 0.09
5 25 0.57
6 14 0.32
7 1 0.02
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (5 bp):
AAAGA
Found at i:60972653 original size:15 final size:14
Alignment explanation
Indices: 60972622--60972678 Score: 60
Period size: 16 Copynumber: 3.7 Consensus size: 14
60972612 ACGAGAAAAC
60972622 AAAGAAAAGAAAAGAA
1 AAAGAAAAG--AAGAA
60972638 AAAGCAAAAGAAGAA
1 AAAG-AAAAGAAGAA
*
60972653 AAAGAAAATGAAATAA
1 AAAGAAAA-G-AAGAA
60972669 AAAGAAAAGA
1 AAAGAAAAGA
60972679 GAGGCAAAAG
Statistics
Matches: 37, Mismatches: 1, Indels: 8
0.80 0.02 0.17
Matches are distributed among these distances:
14 5 0.14
15 11 0.30
16 16 0.43
17 5 0.14
ACGTcount: A:0.77, C:0.02, G:0.18, T:0.04
Consensus pattern (14 bp):
AAAGAAAAGAAGAA
Found at i:60972757 original size:13 final size:12
Alignment explanation
Indices: 60972726--60972757 Score: 55
Period size: 12 Copynumber: 2.7 Consensus size: 12
60972716 TTGAGAGAAC
*
60972726 TTGAAAAAGCCT
1 TTGAAAAAACCT
60972738 TTGAAAAAACCT
1 TTGAAAAAACCT
60972750 TTGAAAAA
1 TTGAAAAA
60972758 CAAAAAGAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.50, C:0.12, G:0.12, T:0.25
Consensus pattern (12 bp):
TTGAAAAAACCT
Found at i:60972781 original size:12 final size:12
Alignment explanation
Indices: 60972759--60972783 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
60972749 TTTGAAAAAC
60972759 AAAAAGAAAATG
1 AAAAAGAAAATG
60972771 AAAAAGAAAATG
1 AAAAAGAAAATG
60972783 A
1 A
60972784 GATTGAAAAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.76, C:0.00, G:0.16, T:0.08
Consensus pattern (12 bp):
AAAAAGAAAATG
Found at i:60972790 original size:18 final size:18
Alignment explanation
Indices: 60972750--60972803 Score: 63
Period size: 18 Copynumber: 3.0 Consensus size: 18
60972740 GAAAAAACCT
* *
60972750 TTGAAAAACAAAAAGAAA
1 TTGAAAAAGAAAATGAAA
* *
60972768 ATGAAAAAGAAAATGAGA
1 TTGAAAAAGAAAATGAAA
*
60972786 TTGAAAAAGAGAATGAAA
1 TTGAAAAAGAAAATGAAA
60972804 AAGAGTTTGA
Statistics
Matches: 29, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 29 1.00
ACGTcount: A:0.67, C:0.02, G:0.19, T:0.13
Consensus pattern (18 bp):
TTGAAAAAGAAAATGAAA
Found at i:60972815 original size:30 final size:30
Alignment explanation
Indices: 60972759--60972857 Score: 83
Period size: 30 Copynumber: 3.3 Consensus size: 30
60972749 TTTGAAAAAC
**
60972759 AAAAAGAAAATGAAAAAGAAAATGAGATTG
1 AAAAAGAAAATGAAAAAGAAAATGAGAGAG
* ***
60972789 AAAAAGAGAATGAAAAAGAGTTTGAGAGAG
1 AAAAAGAAAATGAAAAAGAAAATGAGAGAG
** * * *
60972819 AAAAAGAATGTGAACAAGAAAA-AAGAGTGG
1 AAAAAGAAAATGAAAAAGAAAATGAGAG-AG
60972849 AAAAAGAAA
1 AAAAAGAAA
60972858 TTGAGATAAA
Statistics
Matches: 52, Mismatches: 16, Indels: 2
0.74 0.23 0.03
Matches are distributed among these distances:
29 4 0.08
30 48 0.92
ACGTcount: A:0.64, C:0.01, G:0.24, T:0.11
Consensus pattern (30 bp):
AAAAAGAAAATGAAAAAGAAAATGAGAGAG
Found at i:60972855 original size:18 final size:19
Alignment explanation
Indices: 60972819--60972857 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
60972809 TTTGAGAGAG
*
60972819 AAAAAGAATGTGAACAAGA
1 AAAAAGAATGTGAAAAAGA
*
60972838 AAAAAGAGTG-GAAAAAGA
1 AAAAAGAATGTGAAAAAGA
60972856 AA
1 AA
60972858 TTGAGATAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 9 0.50
19 9 0.50
ACGTcount: A:0.67, C:0.03, G:0.23, T:0.08
Consensus pattern (19 bp):
AAAAAGAATGTGAAAAAGA
Found at i:60973492 original size:17 final size:17
Alignment explanation
Indices: 60973470--60973503 Score: 52
Period size: 17 Copynumber: 2.0 Consensus size: 17
60973460 TGAACTTAAC
60973470 AATTAAGTA-ATGAACCT
1 AATTAAG-ACATGAACCT
60973487 AATTAAGACATGAACCT
1 AATTAAGACATGAACCT
60973504 TCTAGAAAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 1 0.06
17 15 0.94
ACGTcount: A:0.47, C:0.15, G:0.12, T:0.26
Consensus pattern (17 bp):
AATTAAGACATGAACCT
Done.