Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: NW_019168381.1 Durio zibethinus cultivar Musang King isolate D1 unplaced genomic scaffold, Duzib1.0 scaffold_6, whole genome shotgun sequence
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: 26551601
ACGTcount: A:0.34, C:0.15, G:0.15, T:0.34
Warning! 64000 characters in sequence are not A, C, G, or T
File 117 of 130
Found at i:22928857 original size:35 final size:35
Alignment explanation
Indices: 22928682--22928858 Score: 124
Period size: 35 Copynumber: 4.9 Consensus size: 35
22928672 TGTTGTTATA
* * * *
22928682 CTTTGACTCGTGGATTAATCTCGATCATTTCATTATT
1 CTTTGACTTGTGGTTTAATCCCGATCATTT--TTAAT
* ** * * *
22928719 TTCTTGACTTACGGTTTAGTCCCAATCATCTTTAAT
1 CT-TTGACTTGTGGTTTAATCCCGATCATTTTTAAT
*
22928755 CTTTAACTTGTGGTTTAATCCCGATCATTTTTATAATT
1 CTTTGACTTGTGGTTTAATCCCGATCA-TTTT-TAA-T
* * *
22928793 TTTTGGACTTGTGGTTTAGT-CCTAGTCATTTTTAAT
1 CTTT-GACTTGTGGTTTAATCCCGA-TCATTTTTAAT
*
22928829 CTTTGA-TTCATGGTTTAATCCCGATCATTT
1 CTTTGACTT-GTGGTTTAATCCCGATCATTT
22928859 CTATTATTTT
Statistics
Matches: 107, Mismatches: 25, Indels: 18
0.71 0.17 0.12
Matches are distributed among these distances:
34 2 0.02
35 36 0.34
36 15 0.14
37 7 0.07
38 31 0.29
39 16 0.15
ACGTcount: A:0.21, C:0.18, G:0.14, T:0.48
Consensus pattern (35 bp):
CTTTGACTTGTGGTTTAATCCCGATCATTTTTAAT
Found at i:22929067 original size:102 final size:101
Alignment explanation
Indices: 22928941--22929277 Score: 469
Period size: 102 Copynumber: 3.3 Consensus size: 101
22928931 TGTCATTTTA
* **
22928941 TGACTCGCGATTTAATCCCAATCTTTTTATTCTCTAATTCGCAGTTCAATCTCGATCTCTTTAAT
1 TGACTCGCGATTTAATCCCGATCTTTTTATTCT-TAATTCGTGGTTCAATCTCGATCTCTTTAAT
* *
22929006 AT-AAAGTCATAGTTTAATCTCGATTGTTATTATCCTT
65 -TCAAAGTCACAGTTTAATCTCGATTGTTGTTATCCTT
* * *
22929043 TGACTCGTGAATTAATCCTGATCTTTTTATTCTTTAATTCGTGGTTCAATCTCGATCTCTTTAAT
1 TGACTCGCGATTTAATCCCGATCTTTTTATTC-TTAATTCGTGGTTCAATCTCGATCTCTTTAAT
*
22929108 TCAAAGTCGCAGTTTAATCTCGATTGTTGTTATCCTT
65 TCAAAGTCACAGTTTAATCTCGATTGTTGTTATCCTT
* * * * *
22929145 TGACTCACGATTTAATCTCGATCTTTTTATTCTTCGATTTGTGGTTCAATTTCGATCTCTTTAAT
1 TGACTCGCGATTTAATCCCGATCTTTTTATTCTT-AATTCGTGGTTCAATCTCGATCTCTTTAAT
*
22929210 TCAAAGTCACAGTTTAATCTCGATTGTTGTTATCTTT
65 TCAAAGTCACAGTTTAATCTCGATTGTTGTTATCCTT
* * *
22929247 TGACTCGTGGTTTAATCCCGATCATTTTATT
1 TGACTCGCGATTTAATCCCGATCTTTTTATT
22929278 AATTCTCTGA
Statistics
Matches: 208, Mismatches: 24, Indels: 6
0.87 0.10 0.03
Matches are distributed among these distances:
101 3 0.01
102 204 0.98
103 1 0.00
ACGTcount: A:0.23, C:0.19, G:0.12, T:0.46
Consensus pattern (101 bp):
TGACTCGCGATTTAATCCCGATCTTTTTATTCTTAATTCGTGGTTCAATCTCGATCTCTTTAATT
CAAAGTCACAGTTTAATCTCGATTGTTGTTATCCTT
Found at i:22929100 original size:34 final size:34
Alignment explanation
Indices: 22928961--22929207 Score: 85
Period size: 34 Copynumber: 7.3 Consensus size: 34
22928951 TTTAATCCCA
* **
22928961 ATCTTTTTATTCTCTAATTCGCAGTTCAATCTCG
1 ATCTTTTTATTCTTTAATTCGTGGTTCAATCTCG
* * * * * * * *
22928995 ATCTCTTTAAT-ATAAAGTCATAGTTTAATCTCG
1 ATCTTTTTATTCTTTAATTCGTGGTTCAATCTCG
* * * *
22929028 AT-TGTTATTATCCTTTGACTCGTGAATT-AATC-CTG
1 ATCT-TT-TTATTCTTTAATTCGTG-GTTCAATCTC-G
22929063 ATCTTTTTATTCTTTAATTCGTGGTTCAATCTCG
1 ATCTTTTTATTCTTTAATTCGTGGTTCAATCTCG
* * * ** *
22929097 ATCTCTTTAATTC--AAAGTCGCAGTTTAATCTCG
1 ATCT-TTTTATTCTTTAATTCGTGGTTCAATCTCG
* * * ** * *
22929130 AT-TGTTGTTATCCTTTGACTCACGATTTAATCTCG
1 ATCT-TT-TTATTCTTTAATTCGTGGTTCAATCTCG
** * *
22929165 ATCTTTTTATTCTTCGATTTGTGGTTCAATTTCG
1 ATCTTTTTATTCTTTAATTCGTGGTTCAATCTCG
*
22929199 ATCTCTTTA
1 ATCTTTTTA
22929208 ATTCAAAGTC
Statistics
Matches: 152, Mismatches: 48, Indels: 26
0.67 0.21 0.12
Matches are distributed among these distances:
32 4 0.03
33 41 0.27
34 63 0.41
35 40 0.26
36 4 0.03
ACGTcount: A:0.22, C:0.19, G:0.12, T:0.47
Consensus pattern (34 bp):
ATCTTTTTATTCTTTAATTCGTGGTTCAATCTCG
Found at i:22929350 original size:562 final size:562
Alignment explanation
Indices: 22928181--22929350 Score: 1676
Period size: 562 Copynumber: 2.1 Consensus size: 562
22928171 TTGGTCTTAG
* *
22928181 TCATCTTTAATCTTTGACTCGTAGTTTAATCCTGATCATTTCTATAGTTTTTCTGACTTGTGATT
1 TCATCTTTAATCTTTGACTCGTAGTTTAATCC-GATCATTTTTATAATTTTTCTGACTTGTGATT
* *
22928246 TAGTCCCAGTCATCTGTTATCTTTTGACTCGTGATTTAATCTCGATCATTTCTATTATTTTCCCG
65 TAGTCCCAGTCATCTGTTATCTTTTGACTCATGATTTAATCCCGATCATTTCTATTATTTTCCCG
* * * *
22928311 ACTTGCAGTTTAATCGCAATCTTTTTTATCTTTTTAACTTACATTCAATCCAAGTTAACGTCATT
130 ACTTACAGTATAATCCCAATCTCTTTTATCTTTTTAACTTACATTCAATCCAAGTTAACGTCATT
* ** ** *
22928376 TTATGACTCGCGGTTTAATCCTGATCTTTTTATTCTCCAATTCGTGGTTTAATCCCGATCTCTTT
195 TTATGACTCGCGATTTAATCCCAATCTTTTTATTCTCCAATTCGCAGTTCAATCCCGATCTCTTT
* * **
22928441 AATTCAAAGTCCGCATTTAATCTCGATTGTTGTTATCCTTTGACACATGGTTTAATCTCGATCTT
260 AATTCAAAGTCCACATTTAATCTCGATTGTTATTATCCTTTGACACATGAATTAATCTCGATCTT
* * *
22928506 TTTATTTTTCGATTTGTGGTTCAATCTCGATCTTTTTAATTCAAAGTCACAGTTTAATCTCGATT
325 TTTATTTTTCAATTCGTGGTTCAATCTCGATCTCTTTAATTCAAAGTCACAGTTTAATCTCGATT
*
22928571 GTTGTTATCCTTTGACTCACGATTTAATTTCGATCTTTTTATTCTTCGATTCACGGTTCAATGTC
390 GTTGTTATCCTTTGACTCACGATTTAATCTCGATCTTTTTATTCTTCGATTCACGGTTCAATGTC
**
22928636 GATCTCTTTAATTCAAAGTCGTAGTTTAATCTCGATTGTTGTTATACTTTGACTCGTGGATTAAT
455 GATCTCTTTAATTCAAAGTCACAGTTTAATCTCGATTGTTGTTATACTTTGACTCGTGGATTAAT
* * *
22928701 CTCGATCATTTCATTATTTTCTTGACTTACGGTTTAGTCCCAA
520 CCCGATCATTTCATTATTCTCTTGACTTACGATTTAGTCCCAA
* * * *
22928744 TCATCTTTAATCTTTAACTTGTGGTTTAATCCCGATCATTTTTATAATTTTT-TGGACTTGTGGT
1 TCATCTTTAATCTTTGACTCGTAGTTTAAT-CCGATCATTTTTATAATTTTTCT-GACTTGTGAT
* * * *
22928808 TTAGTCCTAGTCAT-TTTTAATC-TTTGATTCATGGTTTAATCCCGATCATTTCTATTATTTTCC
64 TTAGTCCCAGTCATCTGTT-ATCTTTTGACTCATGATTTAATCCCGATCATTTCTATTATTTTCC
* * * * *
22928871 TGACTTACGGTATAATCCCAGTCTCTTTTATCTTTTTAACTTGCATTCAATCCAAGTTAATGTCA
128 CGACTTACAGTATAATCCCAATCTCTTTTATCTTTTTAACTTACATTCAATCCAAGTTAACGTCA
* *
22928936 TTTTATGACTCGCGATTTAATCCCAATCTTTTTATTCTCTAATTCGCAGTTCAATCTCGATCTCT
193 TTTTATGACTCGCGATTTAATCCCAATCTTTTTATTCTCCAATTCGCAGTTCAATCCCGATCTCT
* * *
22929001 TTAATAT-AAAGT-CATAGTTTAATCTCGATTGTTATTATCCTTTGACTCGTGAATTAATC-CTG
258 TTAAT-TCAAAGTCCACA-TTTAATCTCGATTGTTATTATCCTTTGACACATGAATTAATCTC-G
*
22929063 ATCTTTTTATTCTTT-AATTCGTGGTTCAATCTCGATCTCTTTAATTCAAAGTCGCAGTTTAATC
320 ATCTTTTTATT-TTTCAATTCGTGGTTCAATCTCGATCTCTTTAATTCAAAGTCACAGTTTAATC
***
22929127 TCGATTGTTGTTATCCTTTGACTCACGATTTAATCTCGATCTTTTTATTCTTCGATTTGTGGTTC
384 TCGATTGTTGTTATCCTTTGACTCACGATTTAATCTCGATCTTTTTATTCTTCGATTCACGGTTC
*
22929192 AATTTCGATCTCTTTAATTCAAAGTCACAGTTTAATCTCGATTGTTGTTAT-CTTTTGACTCGTG
449 AATGTCGATCTCTTTAATTCAAAGTCACAGTTTAATCTCGATTGTTGTTATAC-TTTGACTCGTG
* *
22929256 GTTTAATCCCGATCATTTTATTAATTCTC-TGACTTACGATTTAGTCCCAA
513 GATTAATCCCGATCATTTCATT-ATTCTCTTGACTTACGATTTAGTCCCAA
* *
22929306 TCATCTTTAATTTTTTGACTCGCAGTTTAATCTCGATC-TTTTTAT
1 TCATCTTTAA-TCTTTGACTCGTAGTTTAATC-CGATCATTTTTAT
22929351 TCTCTGATTC
Statistics
Matches: 539, Mismatches: 57, Indels: 23
0.87 0.09 0.04
Matches are distributed among these distances:
561 4 0.01
562 435 0.81
563 98 0.18
564 2 0.00
ACGTcount: A:0.22, C:0.19, G:0.12, T:0.47
Consensus pattern (562 bp):
TCATCTTTAATCTTTGACTCGTAGTTTAATCCGATCATTTTTATAATTTTTCTGACTTGTGATTT
AGTCCCAGTCATCTGTTATCTTTTGACTCATGATTTAATCCCGATCATTTCTATTATTTTCCCGA
CTTACAGTATAATCCCAATCTCTTTTATCTTTTTAACTTACATTCAATCCAAGTTAACGTCATTT
TATGACTCGCGATTTAATCCCAATCTTTTTATTCTCCAATTCGCAGTTCAATCCCGATCTCTTTA
ATTCAAAGTCCACATTTAATCTCGATTGTTATTATCCTTTGACACATGAATTAATCTCGATCTTT
TTATTTTTCAATTCGTGGTTCAATCTCGATCTCTTTAATTCAAAGTCACAGTTTAATCTCGATTG
TTGTTATCCTTTGACTCACGATTTAATCTCGATCTTTTTATTCTTCGATTCACGGTTCAATGTCG
ATCTCTTTAATTCAAAGTCACAGTTTAATCTCGATTGTTGTTATACTTTGACTCGTGGATTAATC
CCGATCATTTCATTATTCTCTTGACTTACGATTTAGTCCCAA
Found at i:22930640 original size:21 final size:21
Alignment explanation
Indices: 22930612--22930651 Score: 55
Period size: 22 Copynumber: 1.9 Consensus size: 21
22930602 CGTTGATTGA
*
22930612 AACTGACCTGA-GATCCGCGT
1 AACTGACCCGATGATCCGCGT
22930632 AACTCGACCCGATGATCCGC
1 AACT-GACCCGATGATCCGC
22930652 TTCAACCAGC
Statistics
Matches: 17, Mismatches: 1, Indels: 2
0.85 0.05 0.10
Matches are distributed among these distances:
20 4 0.24
21 6 0.35
22 7 0.41
ACGTcount: A:0.25, C:0.35, G:0.23, T:0.17
Consensus pattern (21 bp):
AACTGACCCGATGATCCGCGT
Found at i:22943751 original size:74 final size:73
Alignment explanation
Indices: 22943656--22943849 Score: 241
Period size: 75 Copynumber: 2.6 Consensus size: 73
22943646 CTCAGTCTTA
* * * *
22943656 TATAG-TTCCCTGACTTACGATTTAGTCCCAATCATCTTTAATCTTTGACTCGTGGTTTAATCTT
1 TATAGTTTTCCTGACTTACGATTTAGTCCCAGTCATCTTT-ATCTTTGACTCGTAGTTTAATCTC
*
22943720 GATTATTTC
65 GATCATTTC
*
22943729 TATAGTTTTCCTGACTTACGATTTAGTCTCAGTCATCTGTTATCCTTTGACTCGTAGTTTAATCT
1 TATAGTTTTCCTGACTTACGATTTAGTCCCAGTCATCT-TTAT-CTTTGACTCGTAGTTTAATCT
22943794 CGATCATTTC
64 CGATCATTTC
** *
22943804 TATTA-TTTTTTTGACTTACGATTTAATCCCAGTC-TCTTTTATCTTT
1 TA-TAGTTTTCCTGACTTACGATTTAGTCCCAGTCATC-TTTATCTTT
22943850 CTAACTTGCA
Statistics
Matches: 106, Mismatches: 10, Indels: 10
0.84 0.08 0.08
Matches are distributed among these distances:
73 9 0.08
74 37 0.35
75 58 0.55
76 2 0.02
ACGTcount: A:0.21, C:0.20, G:0.11, T:0.48
Consensus pattern (73 bp):
TATAGTTTTCCTGACTTACGATTTAGTCCCAGTCATCTTTATCTTTGACTCGTAGTTTAATCTCG
ATCATTTC
Found at i:22943946 original size:34 final size:34
Alignment explanation
Indices: 22943893--22944140 Score: 109
Period size: 34 Copynumber: 7.3 Consensus size: 34
22943883 TATGACTCGC
* *
22943893 GATTTAATCTTGATCTTTTTATTCTTCGATTCGT
1 GATTTAATCTCGATTTTTTTATTCTTCGATTCGT
* ** * *
22943927 GATTCAATCTCGATTTTTTTAATTC--AAAGTCAT
1 GATTTAATCTCGATTTTTTT-ATTCTTCGATTCGT
* * *
22943960 -AGTTTAATCTCGATTGTTGTTATCCTTTGACTTACG-
1 GA-TTTAATCTCGATT-TTTTTATTCTTCGA-TT-CGT
*
22943996 G-TTTAATCTCGATCTTTTTATTCTTCGATTCGT
1 GATTTAATCTCGATTTTTTTATTCTTCGATTCGT
* * * * * * ** *
22944029 GGTTCAATCCCTATCTCTTTAATTC--AAAGTCGT
1 GATTTAATCTCGAT-TTTTTTATTCTTCGATTCGT
* * * *
22944062 -AGTTTTATCTCGATTGTTGTTA-TCTTTTGACTCGT
1 GA-TTTAATCTCGATT-TTTTTATTC-TTCGATTCGT
* *
22944097 GATTTAATCTCGATCTTTTTATTCTTCGATTCGC
1 GATTTAATCTCGATTTTTTTATTCTTCGATTCGT
*
22944131 GATTCAATCT
1 GATTTAATCT
22944141 GGATCTCTTT
Statistics
Matches: 151, Mismatches: 45, Indels: 36
0.65 0.19 0.16
Matches are distributed among these distances:
32 6 0.04
33 38 0.25
34 62 0.41
35 42 0.28
36 2 0.01
37 1 0.01
ACGTcount: A:0.20, C:0.18, G:0.13, T:0.49
Consensus pattern (34 bp):
GATTTAATCTCGATTTTTTTATTCTTCGATTCGT
Found at i:22944065 original size:102 final size:102
Alignment explanation
Indices: 22943885--22944315 Score: 574
Period size: 102 Copynumber: 4.2 Consensus size: 102
22943875 CGTCATTTTA
* * * * *
22943885 TGACTCGCGATTTAATCTTGATCTTTTTATTCTTCGATTCGTGATTCAATCTCGATTTTTTTAAT
1 TGACTCACGGTTTAATCTTGATCTTTTTATTCTTCGATTCGTGATTCAATCCCGATCTCTTTAAT
*
22943950 TCAAAGTCATAGTTTAATCTCGATTGTTGTTATCCTT
66 TCAAAGTCACAGTTTAATCTCGATTGTTGTTATCCTT
* * * *
22943987 TGACTTACGGTTTAATCTCGATCTTTTTATTCTTCGATTCGTGGTTCAATCCCTATCTCTTTAAT
1 TGACTCACGGTTTAATCTTGATCTTTTTATTCTTCGATTCGTGATTCAATCCCGATCTCTTTAAT
** * *
22944052 TCAAAGTCGTAGTTTTATCTCGATTGTTGTTATCTTT
66 TCAAAGTCACAGTTTAATCTCGATTGTTGTTATCCTT
** * * * **
22944089 TGACTCGTGATTTAATCTCGATCTTTTTATTCTTCGATTCGCGATTCAATCTGGATCTCTTTAAT
1 TGACTCACGGTTTAATCTTGATCTTTTTATTCTTCGATTCGTGATTCAATCCCGATCTCTTTAAT
* * *
22944154 TCAAAGTCGCAGTTTAATCCCAATTGTTGTTATCCTT
66 TCAAAGTCACAGTTTAATCTCGATTGTTGTTATCCTT
* * * **
22944191 TGACTCGCGATTTAATTTTGATCTTTTTATTCTTCGATTCGTGATTCAATCTTGATCTCTTTAAT
1 TGACTCACGGTTTAATCTTGATCTTTTTATTCTTCGATTCGTGATTCAATCCCGATCTCTTTAAT
* *
22944256 TTAAAGTCACAGTTTAATCTCGATTCTTGTTATCCTT
66 TCAAAGTCACAGTTTAATCTCGATTGTTGTTATCCTT
*
22944293 TGACTCATGGTTTAATCTTGATC
1 TGACTCACGGTTTAATCTTGATC
22944316 ATTTCATTAT
Statistics
Matches: 289, Mismatches: 40, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
102 289 1.00
ACGTcount: A:0.21, C:0.18, G:0.13, T:0.48
Consensus pattern (102 bp):
TGACTCACGGTTTAATCTTGATCTTTTTATTCTTCGATTCGTGATTCAATCCCGATCTCTTTAAT
TCAAAGTCACAGTTTAATCTCGATTGTTGTTATCCTT
Found at i:22944369 original size:73 final size:74
Alignment explanation
Indices: 22944290--22944475 Score: 277
Period size: 74 Copynumber: 2.5 Consensus size: 74
22944280 TCTTGTTATC
22944290 CTTTGACTCATGGTTTAATCTTGATCATTTCATTATTTTC-TCAACTTACAGTTTAGTCCCAGTC
1 CTTTGACTCATGGTTTAATCTTGATCATTTCATTATTTTCTTCAACTTACAGTTTAGTCCCAGTC
22944354 ATCTTTAAT
66 ATCTTTAAT
* * * * * *
22944363 CTTTGACTCGTGGTTTAATCCTAATCATTTC-TATAGTTTCTTTAACTTGCAGTTTAGTCCCAGT
1 CTTTGACTCATGGTTTAATCTTGATCATTTCAT-TATTTTCTTCAACTTACAGTTTAGTCCCAGT
22944427 CATCTTTAAT
65 CATCTTTAAT
*
22944437 CTTTGACTCATGGTTTAATCTCGATCATTTCTATTATTT
1 CTTTGACTCATGGTTTAATCTTGATCATTTC-ATTATTT
22944476 CCCTTACTTA
Statistics
Matches: 98, Mismatches: 11, Indels: 6
0.85 0.10 0.05
Matches are distributed among these distances:
72 1 0.01
73 34 0.35
74 58 0.59
75 4 0.04
76 1 0.01
ACGTcount: A:0.22, C:0.20, G:0.11, T:0.47
Consensus pattern (74 bp):
CTTTGACTCATGGTTTAATCTTGATCATTTCATTATTTTCTTCAACTTACAGTTTAGTCCCAGTC
ATCTTTAAT
Found at i:22944379 original size:35 final size:35
Alignment explanation
Indices: 22944340--22944453 Score: 104
Period size: 35 Copynumber: 3.1 Consensus size: 35
22944330 TCAACTTACA
22944340 GTTTAGTCCCAGTCATCTTTAATCTTTGACTCGTG
1 GTTTAGTCCCAGTCATCTTTAATCTTTGACTCGTG
* * * * * **
22944375 GTTTAATCCTAATCAT-TTCTATAGTTTCTTTAACTTGCA
1 GTTTAGTCCCAGTCATCTT-TA-A---TCTTTGACTCGTG
*
22944414 GTTTAGTCCCAGTCATCTTTAATCTTTGACTCATG
1 GTTTAGTCCCAGTCATCTTTAATCTTTGACTCGTG
22944449 GTTTA
1 GTTTA
22944454 ATCTCGATCA
Statistics
Matches: 58, Mismatches: 15, Indels: 12
0.68 0.18 0.14
Matches are distributed among these distances:
34 2 0.03
35 28 0.48
36 1 0.02
38 1 0.02
39 24 0.41
40 2 0.03
ACGTcount: A:0.21, C:0.20, G:0.13, T:0.46
Consensus pattern (35 bp):
GTTTAGTCCCAGTCATCTTTAATCTTTGACTCGTG
Found at i:22944672 original size:102 final size:101
Alignment explanation
Indices: 22944551--22944877 Score: 496
Period size: 102 Copynumber: 3.2 Consensus size: 101
22944541 TCATTTTATG
*
22944551 ACTCGCGATTTAATCTCGATCTTTTTGTTCTTTGATTCGCGGTTCAATCTCTATCTCTTTAATTC
1 ACTCGCGATTTAATCTCGATCTTTTTATTCTTTGATTCGCGGTTCAATC-CTATCTCTTTAATTC
22944616 AAAGTCGCAGTTTAATCTCGATTGTTGTTATCCTTTT
65 AAAGTCGCAGTTTAATCTCGATTGTTGTTATCCTTTT
* * * *
22944653 ACTCACGATTTAATCTCGATCTTTTTATTCTCTGATTTGTGGTTCAATCCTGATCTCTTTAATTC
1 ACTCGCGATTTAATCTCGATCTTTTTATTCTTTGATTCGCGGTTCAATCCT-ATCTCTTTAATTC
22944718 AAAGTCGCAGTTTAATCTCGATTGTTGTTAT-CTTTT
65 AAAGTCGCAGTTTAATCTCGATTGTTGTTATCCTTTT
* *
22944754 GACTCGCGATTTAATC-CTGATCTTTTTATTCTTTGATTCACGGTTCAATCCCGATCTCTTTAAT
1 -ACTCGCGATTTAATCTC-GATCTTTTTATTCTTTGATTCGCGGTTCAAT-CCTATCTCTTTAAT
* *
22944818 TCAAAGTCACAGTTTAATCTCGATTGTTGTTATCCTTTG
63 TCAAAGTCGCAGTTTAATCTCGATTGTTGTTATCCTTTT
* *
22944857 ACTCGTGGTTTAATCTCGATC
1 ACTCGCGATTTAATCTCGATC
22944878 ATTTCATTAA
Statistics
Matches: 204, Mismatches: 15, Indels: 12
0.88 0.06 0.05
Matches are distributed among these distances:
101 8 0.04
102 189 0.93
103 7 0.03
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.46
Consensus pattern (101 bp):
ACTCGCGATTTAATCTCGATCTTTTTATTCTTTGATTCGCGGTTCAATCCTATCTCTTTAATTCA
AAGTCGCAGTTTAATCTCGATTGTTGTTATCCTTTT
Found at i:22946818 original size:13 final size:13
Alignment explanation
Indices: 22946782--22946806 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
22946772 ATTAAACCCC
22946782 TAAACCCTAAACT
1 TAAACCCTAAACT
22946795 TAAACCCTAAAC
1 TAAACCCTAAAC
22946807 CTTTACCCTA
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:0.48, C:0.32, G:0.00, T:0.20
Consensus pattern (13 bp):
TAAACCCTAAACT
Found at i:22948569 original size:20 final size:20
Alignment explanation
Indices: 22948544--22948583 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
22948534 AAATATATAT
22948544 ATATATTAACTTTTAT-TTAC
1 ATATATTAA-TTTTATGTTAC
*
22948564 ATATATTTATTTTATGTTAC
1 ATATATTAATTTTATGTTAC
22948584 TTTAAATAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
19 6 0.33
20 12 0.67
ACGTcount: A:0.33, C:0.07, G:0.03, T:0.57
Consensus pattern (20 bp):
ATATATTAATTTTATGTTAC
Found at i:22959836 original size:25 final size:26
Alignment explanation
Indices: 22959788--22959836 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
22959778 ACGTCTTACA
*
22959788 GAATCCAGTTTGTGGGATAAGAGCCC
1 GAATCAAGTTTGTGGGATAAGAGCCC
22959814 GAATCAAGTTTGT-GGATAAGAGC
1 GAATCAAGTTTGTGGGATAAGAGC
22959837 TCGTATTGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 10 0.45
26 12 0.55
ACGTcount: A:0.31, C:0.14, G:0.31, T:0.24
Consensus pattern (26 bp):
GAATCAAGTTTGTGGGATAAGAGCCC
Found at i:22963036 original size:2 final size:2
Alignment explanation
Indices: 22963029--22963058 Score: 60
Period size: 2 Copynumber: 15.0 Consensus size: 2
22963019 ACAACTGTCA
22963029 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
22963059 CATCACTTTC
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 28 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22967097 original size:25 final size:25
Alignment explanation
Indices: 22967064--22967120 Score: 96
Period size: 25 Copynumber: 2.3 Consensus size: 25
22967054 TGAATGTTTA
22967064 TTTTGAATAGACAAAAACTGTATAT
1 TTTTGAATAGACAAAAACTGTATAT
* *
22967089 TTTTTAATAGACAAAAACTGTCTAT
1 TTTTGAATAGACAAAAACTGTATAT
22967114 TTTTGAA
1 TTTTGAA
22967121 CAGTTAAAAC
Statistics
Matches: 29, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 29 1.00
ACGTcount: A:0.40, C:0.09, G:0.11, T:0.40
Consensus pattern (25 bp):
TTTTGAATAGACAAAAACTGTATAT
Found at i:22970255 original size:2 final size:2
Alignment explanation
Indices: 22970248--22970276 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
22970238 TCCTCTTTTG
22970248 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT C
22970277 ACTTTCCATT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.00, C:0.52, G:0.00, T:0.48
Consensus pattern (2 bp):
CT
Found at i:22971125 original size:28 final size:28
Alignment explanation
Indices: 22971085--22971138 Score: 90
Period size: 28 Copynumber: 1.9 Consensus size: 28
22971075 AAAGAAAAAA
*
22971085 AATCTTTCAAGTGATTATTAATTTAACT
1 AATCTTTCAAGTGATTATAAATTTAACT
*
22971113 AATCTTTTAAGTGATTATAAATTTAA
1 AATCTTTCAAGTGATTATAAATTTAA
22971139 TTATGGTCAG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
28 24 1.00
ACGTcount: A:0.39, C:0.07, G:0.07, T:0.46
Consensus pattern (28 bp):
AATCTTTCAAGTGATTATAAATTTAACT
Found at i:22982791 original size:17 final size:18
Alignment explanation
Indices: 22982771--22982813 Score: 54
Period size: 17 Copynumber: 2.5 Consensus size: 18
22982761 AGACATTTAC
*
22982771 TTATATTAAT-ATAATTT
1 TTATATTAATCAAAATTT
*
22982788 TTATATT-TTCAAAATTT
1 TTATATTAATCAAAATTT
22982805 TTATATTAA
1 TTATATTAA
22982814 AATTATTAAA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
16 1 0.05
17 20 0.95
ACGTcount: A:0.40, C:0.02, G:0.00, T:0.58
Consensus pattern (18 bp):
TTATATTAATCAAAATTT
Found at i:22982843 original size:14 final size:14
Alignment explanation
Indices: 22982791--22982843 Score: 52
Period size: 15 Copynumber: 3.6 Consensus size: 14
22982781 ATAATTTTTA
*
22982791 TATTTTCAAAATTTT
1 TATTTT-AAAATTAT
*
22982806 TATATTAAAATTAT
1 TATTTTAAAATTAT
* *
22982820 TAAATTTAAAAATAT
1 T-ATTTTAAAATTAT
22982835 TATTTTAAA
1 TATTTTAAA
22982844 TAAAAAAATA
Statistics
Matches: 31, Mismatches: 6, Indels: 3
0.77 0.15 0.08
Matches are distributed among these distances:
14 15 0.48
15 16 0.52
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (14 bp):
TATTTTAAAATTAT
Found at i:22983410 original size:18 final size:19
Alignment explanation
Indices: 22983389--22983435 Score: 53
Period size: 18 Copynumber: 2.6 Consensus size: 19
22983379 GATTAATTTT
**
22983389 TTTAAATT-ATAAATTTAA
1 TTTAAATTAATAAAAATAA
22983407 TTT-AATTAATAAAAATAA
1 TTTAAATTAATAAAAATAA
*
22983425 TTTAATTTAAT
1 TTTAAATTAAT
22983436 TGTATTAATT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 4 0.17
18 14 0.58
19 6 0.25
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (19 bp):
TTTAAATTAATAAAAATAA
Found at i:22990048 original size:21 final size:20
Alignment explanation
Indices: 22990022--22990061 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 20
22990012 ATAAATTACG
22990022 CATTTTTTTATTGTAGATATC
1 CATTTTTTTATT-TAGATATC
22990043 CATTTTTTTATTTAGATAT
1 CATTTTTTTATTTAGATAT
22990062 TTAATATTAA
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 7 0.37
21 12 0.63
ACGTcount: A:0.25, C:0.07, G:0.07, T:0.60
Consensus pattern (20 bp):
CATTTTTTTATTTAGATATC
Found at i:22990097 original size:16 final size:14
Alignment explanation
Indices: 22990058--22990099 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 14
22990048 TTTTATTTAG
*
22990058 ATATTTAAT-ATTA
1 ATATTTTATAATTA
22990071 ATATTTTATAATTA
1 ATATTTTATAATTA
22990085 TATATTTTGATAATT
1 -ATATTTT-ATAATT
22990100 TTTTTAATTT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
13 8 0.32
14 4 0.16
15 7 0.28
16 6 0.24
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (14 bp):
ATATTTTATAATTA
Found at i:22991142 original size:20 final size:20
Alignment explanation
Indices: 22991104--22991142 Score: 51
Period size: 20 Copynumber: 1.9 Consensus size: 20
22991094 AAAATCACAT
* **
22991104 TTTTTAAATTTTATTTTTTA
1 TTTTTAAAATTTAAATTTTA
22991124 TTTTTAAAATTTAAATTTT
1 TTTTTAAAATTTAAATTTT
22991143 TCAAAATTTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (20 bp):
TTTTTAAAATTTAAATTTTA
Found at i:22991142 original size:21 final size:21
Alignment explanation
Indices: 22991102--22991143 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
22991092 AAAAAATCAC
* * *
22991102 ATTTTTTAAATTTTATTTTTT
1 ATTTTTAAAATTTAAATTTTT
22991123 ATTTTTAAAATTTAAATTTTT
1 ATTTTTAAAATTTAAATTTTT
22991144 CAAAATTTTT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (21 bp):
ATTTTTAAAATTTAAATTTTT
Found at i:22996231 original size:18 final size:18
Alignment explanation
Indices: 22996210--22996244 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
22996200 TATCTAAGTC
22996210 TTTATTTCA-ATTAAAAGA
1 TTTATTT-ATATTAAAAGA
22996228 TTTATTTATATTAAAAG
1 TTTATTTATATTAAAAG
22996245 CTTAATTAGG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 1 0.06
18 15 0.94
ACGTcount: A:0.43, C:0.03, G:0.06, T:0.49
Consensus pattern (18 bp):
TTTATTTATATTAAAAGA
Found at i:22996302 original size:30 final size:30
Alignment explanation
Indices: 22996238--22996320 Score: 103
Period size: 30 Copynumber: 2.8 Consensus size: 30
22996228 TTTATTTATA
* * * *
22996238 TTAAAAGCTTAATTAGGTATAAATTACAGG
1 TTAAAAGCTTATTTAGATATAAATTAAAAG
*
22996268 TTAAAAGCTTATTTAGATATAAATTAAAAT
1 TTAAAAGCTTATTTAGATATAAATTAAAAG
* *
22996298 TTAAAAGCCTATTTAAATATAAA
1 TTAAAAGCTTATTTAGATATAAA
22996321 GTAGAGGTGG
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
30 46 1.00
ACGTcount: A:0.48, C:0.06, G:0.10, T:0.36
Consensus pattern (30 bp):
TTAAAAGCTTATTTAGATATAAATTAAAAG
Found at i:22997675 original size:31 final size:31
Alignment explanation
Indices: 22997640--22997708 Score: 88
Period size: 31 Copynumber: 2.2 Consensus size: 31
22997630 TATATTTTAT
*
22997640 ATTTTTATATCA-ATATAA-ATTATAATATATA
1 ATTTTTATATAACATATAATA-TA-AATATATA
22997671 ATTTTTATATAACATATAATATAAATATATA
1 ATTTTTATATAACATATAATATAAATATATA
*
22997702 AATTTTA
1 ATTTTTA
22997709 ATATTTTATA
Statistics
Matches: 34, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
31 25 0.74
32 8 0.24
33 1 0.03
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (31 bp):
ATTTTTATATAACATATAATATAAATATATA
Found at i:22997698 original size:18 final size:18
Alignment explanation
Indices: 22997646--22997699 Score: 54
Period size: 18 Copynumber: 2.9 Consensus size: 18
22997636 TTATATTTTT
*
22997646 ATATCAATATAAATTATAAT
1 ATAT-AATATAAA-TATAAC
* **
22997666 ATATAATTTTTATATAAC
1 ATATAATATAAATATAAC
22997684 ATATAATATAAATATA
1 ATATAATATAAATATA
22997700 TAAATTTTAA
Statistics
Matches: 27, Mismatches: 7, Indels: 2
0.75 0.19 0.06
Matches are distributed among these distances:
18 18 0.67
19 5 0.19
20 4 0.15
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.43
Consensus pattern (18 bp):
ATATAATATAAATATAAC
Found at i:22998854 original size:4 final size:4
Alignment explanation
Indices: 22998845--22998869 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
22998835 ATGCATTTAA
22998845 TATT TATT TATT TATT TATT TATT T
1 TATT TATT TATT TATT TATT TATT T
22998870 TTATTGGTAG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (4 bp):
TATT
Found at i:22999068 original size:21 final size:21
Alignment explanation
Indices: 22999016--22999069 Score: 85
Period size: 20 Copynumber: 2.7 Consensus size: 21
22999006 TAAAAAATAT
22999016 ATAAAAATA-ATATGAATTTA
1 ATAAAAATATATATGAATTTA
*
22999036 ACAAAAAT-TATATGAATTTA
1 ATAAAAATATATATGAATTTA
22999056 ATAAAAATATATAT
1 ATAAAAATATATAT
22999070 TTAATGCATC
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
20 25 0.83
21 5 0.17
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.35
Consensus pattern (21 bp):
ATAAAAATATATATGAATTTA
Found at i:22999907 original size:18 final size:21
Alignment explanation
Indices: 22999886--22999927 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 21
22999876 ATATATATTT
22999886 TTATTATTAAT-TTTAATTTTA
1 TTATTA-TAATATTTAATTTTA
22999907 TTATTATAATATTTAATTTTA
1 TTATTATAATATTTAATTTTA
22999928 ATTTTATTGA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 4 0.20
21 16 0.80
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (21 bp):
TTATTATAATATTTAATTTTA
Found at i:22999912 original size:21 final size:23
Alignment explanation
Indices: 22999893--22999935 Score: 58
Period size: 21 Copynumber: 2.0 Consensus size: 23
22999883 TTTTTATTAT
22999893 TAAT-TTTAATTTT-ATTATTA-
1 TAATATTTAATTTTAATTATTAT
22999913 TAATATTTAATTTTAATT-TTAT
1 TAATATTTAATTTTAATTATTAT
22999935 T
1 T
22999936 GACACCATTA
Statistics
Matches: 20, Mismatches: 0, Indels: 4
0.83 0.00 0.17
Matches are distributed among these distances:
20 4 0.20
21 12 0.60
22 4 0.20
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (23 bp):
TAATATTTAATTTTAATTATTAT
Found at i:22999927 original size:6 final size:6
Alignment explanation
Indices: 22999882--22999933 Score: 50
Period size: 6 Copynumber: 8.0 Consensus size: 6
22999872 TTAAATATAT
* *
22999882 ATTTTT ATTATTA ATTTTA ATTTTA TTATTATA ATATTTA ATTTTA ATTTTA
1 ATTTTA ATT-TTA ATTTTA ATTTTA --ATTTTA AT-TTTA ATTTTA ATTTTA
22999934 TTGACACCAT
Statistics
Matches: 39, Mismatches: 3, Indels: 8
0.78 0.06 0.16
Matches are distributed among these distances:
6 24 0.62
7 10 0.26
8 5 0.13
ACGTcount: A:0.35, C:0.00, G:0.00, T:0.65
Consensus pattern (6 bp):
ATTTTA
Found at i:23000441 original size:10 final size:10
Alignment explanation
Indices: 23000413--23000446 Score: 50
Period size: 10 Copynumber: 3.2 Consensus size: 10
23000403 ATAATGATAC
23000413 TAAATTTAAA
1 TAAATTTAAA
23000423 TAAATATTTAAA
1 T-AA-ATTTAAA
23000435 TAAATTTAAA
1 TAAATTTAAA
23000445 TA
1 TA
23000447 TTATAAATAT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
10 10 0.45
11 4 0.18
12 8 0.36
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (10 bp):
TAAATTTAAA
Found at i:23001186 original size:11 final size:11
Alignment explanation
Indices: 23001170--23001208 Score: 51
Period size: 11 Copynumber: 3.5 Consensus size: 11
23001160 CTCATAAATT
*
23001170 ATTTAATTTTA
1 ATTTAAATTTA
**
23001181 ATTTAAATAAA
1 ATTTAAATTTA
23001192 ATTTAAATTTA
1 ATTTAAATTTA
23001203 ATTTAA
1 ATTTAA
23001209 TTATTGTTGA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
11 23 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (11 bp):
ATTTAAATTTA
Found at i:23001693 original size:14 final size:14
Alignment explanation
Indices: 23001674--23001717 Score: 61
Period size: 14 Copynumber: 3.1 Consensus size: 14
23001664 TTAAGGACAG
23001674 TTAAAATATTATTT
1 TTAAAATATTATTT
* *
23001688 TTAAAAAATTATAT
1 TTAAAATATTATTT
23001702 TTAATAATATTATTT
1 TTAA-AATATTATTT
23001717 T
1 T
23001718 CATCAAATTA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
14 16 0.64
15 9 0.36
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (14 bp):
TTAAAATATTATTT
Found at i:23010144 original size:20 final size:21
Alignment explanation
Indices: 23010117--23010158 Score: 52
Period size: 20 Copynumber: 2.0 Consensus size: 21
23010107 AAAAATGATT
23010117 AAATAAAAACTA-AAA-TAAA
1 AAATAAAAACTATAAATTAAA
*
23010136 AAATCAAAACCTATAAATTAAA
1 AAAT-AAAAACTATAAATTAAA
23010158 A
1 A
23010159 GATTTCGTTA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
19 4 0.21
20 7 0.37
21 3 0.16
22 5 0.26
ACGTcount: A:0.71, C:0.10, G:0.00, T:0.19
Consensus pattern (21 bp):
AAATAAAAACTATAAATTAAA
Found at i:23010804 original size:168 final size:168
Alignment explanation
Indices: 23010523--23010861 Score: 482
Period size: 168 Copynumber: 2.0 Consensus size: 168
23010513 TTTATGATCT
* * * **
23010523 TTAAGAGTAAAATAGATATTTTATTTTAGATTGTGAATCACCAATTAAATGAGGGTAATTTTGTT
1 TTAAGAGTAAAATAAATATTTTATTTTAAATTGTGAATCACCAATCAAATGAAAGTAATTTTGTT
* * *
23010588 GTTTTGACTCAAGCTAATGCATCAAATAAACCTTAAGTCTCAAAATCATATTAATTCGGATACCT
66 ATTTTGACTCAAGCTAATGCATCAAATAAACCTTAAGTCTCAAAATCATATCAATTCGAATACCT
*
23010653 CAACTTATCACTTGAAAGCACATAAAAATGTTAACTTG
131 CAACTTATCACTTGAAAGCACATAAAAACGTTAACTTG
* * *
23010691 TTAAGAGTAAAATAAATTTTTTATTTTAAATTGTGAATCACCAATCAAATTAAATTAATTTTGTT
1 TTAAGAGTAAAATAAATATTTTATTTTAAATTGTGAATCACCAATCAAATGAAAGTAATTTTGTT
* * * * * *
23010756 ATTTTGACTTAAGCTAATGCATCAAGTAGA-CTTAAAGTCTCGAAATCATATCAGTTCGAATACT
66 ATTTTGACTCAAGCTAATGCATCAAATAAACCTT-AAGTCTCAAAATCATATCAATTCGAATACC
* *
23010820 TCAACTTATCACTTGAAAGTACATGAAAACGTTAACTTG
130 TCAACTTATCACTTGAAAGCACATAAAAACGTTAACTTG
23010859 TTA
1 TTA
23010862 TTTTTTCAAT
Statistics
Matches: 150, Mismatches: 20, Indels: 2
0.87 0.12 0.01
Matches are distributed among these distances:
167 3 0.02
168 147 0.98
ACGTcount: A:0.38, C:0.13, G:0.12, T:0.36
Consensus pattern (168 bp):
TTAAGAGTAAAATAAATATTTTATTTTAAATTGTGAATCACCAATCAAATGAAAGTAATTTTGTT
ATTTTGACTCAAGCTAATGCATCAAATAAACCTTAAGTCTCAAAATCATATCAATTCGAATACCT
CAACTTATCACTTGAAAGCACATAAAAACGTTAACTTG
Found at i:23017882 original size:17 final size:18
Alignment explanation
Indices: 23017845--23017882 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 18
23017835 TAATAATTTT
*
23017845 ATTTATAATATATTGTTA
1 ATTTATAATATATTATTA
*
23017863 ATTTATAA-ATTTTATTA
1 ATTTATAATATATTATTA
23017880 ATT
1 ATT
23017883 ATTTATAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (18 bp):
ATTTATAATATATTATTA
Found at i:23018676 original size:21 final size:21
Alignment explanation
Indices: 23018647--23018687 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
23018637 AAACCGTTGT
*
23018647 CAACCGAAGATCAAAGGATAC
1 CAACCGAAGATCAAAAGATAC
* *
23018668 CAACTGAAGGTCAAAAGATA
1 CAACCGAAGATCAAAAGATA
23018688 AGCAAAAATA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.49, C:0.20, G:0.20, T:0.12
Consensus pattern (21 bp):
CAACCGAAGATCAAAAGATAC
Found at i:23020209 original size:7 final size:7
Alignment explanation
Indices: 23020196--23020225 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
23020186 TAAATAAACA
23020196 TTTTTAT
1 TTTTTAT
*
23020203 CTTTTAT
1 TTTTTAT
23020210 TTTTTAT
1 TTTTTAT
23020217 TTTTTAT
1 TTTTTAT
23020224 TT
1 TT
23020226 ATTTTGAGCT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.13, C:0.03, G:0.00, T:0.83
Consensus pattern (7 bp):
TTTTTAT
Found at i:23020440 original size:278 final size:267
Alignment explanation
Indices: 23020107--23020601 Score: 690
Period size: 278 Copynumber: 1.8 Consensus size: 267
23020097 TAAAACTTAA
*
23020107 AAAAAAATTCCTTGAAAATAATTAAGGAAAATAAGATATTTCCAATTTTCTTTAAAATTTTCTAT
1 AAAAAAATTCCTTGAAAATAATTAAGGAAAATAAGATATTTCCAATTTCCTTTAAAATTTTCTAT
* *
23020172 TTAAGAGATTTATTTAAATAAACATTTTTATCTTTTATTTTTTATTTTTTATTTATTTTGAGCTA
66 TTAAGAGATTGATTTAAATAAAC------A-CTTTTATTATTTA-TTTTTATTTATTTTGAGCTA
* * *
23020237 TTTAAATAAATATTTATTATAAAAAAATAATTTTAGGATTATCTC-AACTTTTTAACAAAATTC-
123 TTTAAATAAATATTTATT-TAAAAAAATAATTTTAAGATTATC-CAAACTCTTTAA-AAAAGTCT
23020300 AAAAATATTTTTACTTGCAATAATTTAAAAAAAAAAAATACCTCTTTCAACTCTCTTTAAAAAAT
185 AAAAATATTTTTACTTGCAATAA-TTAAAAAAAAAAAATACCTCTTTCAACTCTCTTTAAAAAAT
23020365 TACATTTTAAAAGATTTTC
249 TACATTTTAAAAGATTTTC
* * *
23020384 AAAAATATCTCCTTGAAAATAGTTAAGGAAAATAAGACT-TTTCCTATTTCCTTTAAAATTTTCT
1 AAAAAAAT-TCCTTGAAAATAATTAAGGAAAATAAGA-TATTTCCAATTTCCTTTAAAATTTTCT
*
23020448 ATTTAAGATATTGATTTAAATAAACACTTTTATTATTTATTTTTATTTATTTTGAGCTATTTAAA
64 ATTTAAGAGATTGATTTAAATAAACACTTTTATTATTTATTTTTATTTATTTTGAGCTATTTAAA
* * * * * *
23020513 TAAATCTTTGTTTAGAAAAATAATTTTAAGATTATCCAAACTCTTTGATAACGTCTAAAAATATT
129 TAAATATTTATTTAAAAAAATAATTTTAAGATTATCCAAACTCTTTAAAAAAGTCTAAAAATATT
*
23020578 TTTACTTTCAATAATTAAAAAAAA
194 TTTACTTGCAATAATTAAAAAAAA
23020602 TTGATCTCTT
Statistics
Matches: 197, Mismatches: 17, Indels: 17
0.85 0.07 0.07
Matches are distributed among these distances:
268 15 0.08
269 52 0.26
270 36 0.18
271 12 0.06
272 1 0.01
277 7 0.04
278 73 0.37
279 1 0.01
ACGTcount: A:0.41, C:0.09, G:0.05, T:0.44
Consensus pattern (267 bp):
AAAAAAATTCCTTGAAAATAATTAAGGAAAATAAGATATTTCCAATTTCCTTTAAAATTTTCTAT
TTAAGAGATTGATTTAAATAAACACTTTTATTATTTATTTTTATTTATTTTGAGCTATTTAAATA
AATATTTATTTAAAAAAATAATTTTAAGATTATCCAAACTCTTTAAAAAAGTCTAAAAATATTTT
TACTTGCAATAATTAAAAAAAAAAAATACCTCTTTCAACTCTCTTTAAAAAATTACATTTTAAAA
GATTTTC
Found at i:23021181 original size:20 final size:20
Alignment explanation
Indices: 23021153--23021190 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
23021143 TTATTTTAAA
*
23021153 GTTTATTTATATTTGTTTGG
1 GTTTATTTATATTCGTTTGG
*
23021173 GTTTGTTTATATTCGTTT
1 GTTTATTTATATTCGTTT
23021191 AAAAATTGTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.03, G:0.18, T:0.66
Consensus pattern (20 bp):
GTTTATTTATATTCGTTTGG
Found at i:23021604 original size:14 final size:15
Alignment explanation
Indices: 23021574--23021636 Score: 67
Period size: 15 Copynumber: 4.1 Consensus size: 15
23021564 AATTTTTAAT
*
23021574 AATTATAAAAATAAA
1 AATTAAAAAAATAAA
23021589 AATTAAAAAAAT-AA
1 AATTAAAAAAATAAA
*
23021603 AATTAAATCAAATCAAAA
1 AATTAAA-AAAAT--AAA
23021621 AATTAAAAAAA-AAA
1 AATTAAAAAAATAAA
23021635 AA
1 AA
23021637 CTTACAAATA
Statistics
Matches: 41, Mismatches: 3, Indels: 9
0.77 0.06 0.17
Matches are distributed among these distances:
14 14 0.34
15 15 0.37
17 3 0.07
18 9 0.22
ACGTcount: A:0.76, C:0.03, G:0.00, T:0.21
Consensus pattern (15 bp):
AATTAAAAAAATAAA
Found at i:23025529 original size:16 final size:17
Alignment explanation
Indices: 23025508--23025540 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
23025498 ATTCTAAAAA
*
23025508 TATTTTTTA-AAAAATT
1 TATTTTTAAGAAAAATT
23025524 TATTTTTAAGAAAAATT
1 TATTTTTAAGAAAAATT
23025541 AATACTTTCA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.45, C:0.00, G:0.03, T:0.52
Consensus pattern (17 bp):
TATTTTTAAGAAAAATT
Found at i:23025569 original size:58 final size:58
Alignment explanation
Indices: 23025499--23025653 Score: 194
Period size: 58 Copynumber: 2.7 Consensus size: 58
23025489 TAATTTTACA
*
23025499 TTCT-AAAAATATTTTTTAAAAAATTTATTTTTAAGAAAAATTAATACTTTCAA-TTT
1 TTCTCAAAAATATTTTTTAAAAAATTTATTTTTAAGAAAAATTAATAATTTCAACTTT
* * * *
23025555 TTCATCGAAAATATTTTTTAAAAAATTTATTTTCAATG-AAAATTGATAATTTTAACTTT
1 TTC-TCAAAAATATTTTTTAAAAAATTTATTTTTAA-GAAAAATTAATAATTTCAACTTT
* *
23025614 TTCTCAAAAATATTTTTTTAAAATTTTA-TTTTAA-AAAAAT
1 TTCTCAAAAATATTTTTTAAAAAATTTATTTTTAAGAAAAAT
23025654 CATTTAAAAA
Statistics
Matches: 85, Mismatches: 9, Indels: 10
0.82 0.09 0.10
Matches are distributed among these distances:
56 8 0.09
57 6 0.07
58 64 0.75
59 7 0.08
ACGTcount: A:0.43, C:0.06, G:0.03, T:0.48
Consensus pattern (58 bp):
TTCTCAAAAATATTTTTTAAAAAATTTATTTTTAAGAAAAATTAATAATTTCAACTTT
Found at i:23028044 original size:19 final size:19
Alignment explanation
Indices: 23028020--23028061 Score: 57
Period size: 19 Copynumber: 2.2 Consensus size: 19
23028010 TGATCATGAA
23028020 AAAATAGAAAAAAAAAAAG
1 AAAATAGAAAAAAAAAAAG
** *
23028039 AAAATATCAAAGAAAAAAG
1 AAAATAGAAAAAAAAAAAG
23028058 AAAA
1 AAAA
23028062 AAAAATGAAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
19 20 1.00
ACGTcount: A:0.81, C:0.02, G:0.10, T:0.07
Consensus pattern (19 bp):
AAAATAGAAAAAAAAAAAG
Found at i:23030558 original size:79 final size:79
Alignment explanation
Indices: 23030427--23030591 Score: 294
Period size: 79 Copynumber: 2.1 Consensus size: 79
23030417 TGAGTGAAAC
*
23030427 ATGTTGAACAGTCTTGTTGCCATCTTTTACCTCTTATTCATGTTGCATAGACAATTGGAAATGTG
1 ATGTTGAACAGTCTTGTTGCCATCTTTTACCTCTTATTCATGTTGCATAGACAATTGAAAATGTG
23030492 CAAGTTCCCCATTG
66 CAAGTTCCCCATTG
* *
23030506 ATGTTGAGCAGTCTTGTTGCCATCTTTTACCTCTTATTCTTGTTGCATAGACAATTGAAAATGTG
1 ATGTTGAACAGTCTTGTTGCCATCTTTTACCTCTTATTCATGTTGCATAGACAATTGAAAATGTG
23030571 CAAGTTCCCCATTG
66 CAAGTTCCCCATTG
*
23030585 TTGTTGA
1 ATGTTGA
23030592 CATGAGCAAA
Statistics
Matches: 82, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
79 82 1.00
ACGTcount: A:0.23, C:0.19, G:0.18, T:0.39
Consensus pattern (79 bp):
ATGTTGAACAGTCTTGTTGCCATCTTTTACCTCTTATTCATGTTGCATAGACAATTGAAAATGTG
CAAGTTCCCCATTG
Found at i:23036478 original size:2 final size:2
Alignment explanation
Indices: 23036471--23036495 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
23036461 ATAGGAGGGG
23036471 GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA G
23036496 TAAATACTCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.48, C:0.00, G:0.52, T:0.00
Consensus pattern (2 bp):
GA
Found at i:23042998 original size:18 final size:18
Alignment explanation
Indices: 23042968--23043012 Score: 56
Period size: 18 Copynumber: 2.5 Consensus size: 18
23042958 TAATAATATT
23042968 AAATACAAT-AAAAAAATA
1 AAATA-AATAAAAAAAATA
*
23042986 AAATAAATAAAAAACATA
1 AAATAAATAAAAAAAATA
*
23043004 AAATTAATA
1 AAATAAATA
23043013 CGACTTAAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
17 3 0.12
18 21 0.88
ACGTcount: A:0.76, C:0.04, G:0.00, T:0.20
Consensus pattern (18 bp):
AAATAAATAAAAAAAATA
Found at i:23043035 original size:12 final size:12
Alignment explanation
Indices: 23043018--23043056 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
23043008 TAATACGACT
23043018 TAAAATTTAAAA
1 TAAAATTTAAAA
*
23043030 TAAAATCATAAAA
1 TAAAAT-TTAAAA
*
23043043 TAAAATTAAAAA
1 TAAAATTTAAAA
23043055 TA
1 TA
23043057 TATATTTTAT
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
12 12 0.52
13 11 0.48
ACGTcount: A:0.69, C:0.03, G:0.00, T:0.28
Consensus pattern (12 bp):
TAAAATTTAAAA
Found at i:23043126 original size:19 final size:20
Alignment explanation
Indices: 23043102--23043148 Score: 69
Period size: 19 Copynumber: 2.4 Consensus size: 20
23043092 TATATAATTT
23043102 TTATATAAAATATT-ATATA
1 TTATATAAAATATTAATATA
* *
23043121 TTATATAAATTATTAATATT
1 TTATATAAAATATTAATATA
23043141 TTATATAA
1 TTATATAA
23043149 TATAAATACA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
19 13 0.52
20 12 0.48
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (20 bp):
TTATATAAAATATTAATATA
Found at i:23043156 original size:18 final size:19
Alignment explanation
Indices: 23043087--23043156 Score: 74
Period size: 18 Copynumber: 3.7 Consensus size: 19
23043077 CGACATAAAT
23043087 TATAATATATAAT-TTTTA
1 TATAATATATAATATTTTA
* * *
23043105 TATAAAATATTATATATTA
1 TATAATATATAATATTTTA
23043124 TATAA-ATTATTAATATTTTA
1 TATAATA-TA-TAATATTTTA
23043144 TATAATATA-AATA
1 TATAATATATAATA
23043157 CATAAATTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 8
0.77 0.09 0.14
Matches are distributed among these distances:
18 16 0.37
19 11 0.26
20 15 0.35
21 1 0.02
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (19 bp):
TATAATATATAATATTTTA
Found at i:23045418 original size:24 final size:23
Alignment explanation
Indices: 23045391--23045454 Score: 83
Period size: 24 Copynumber: 2.7 Consensus size: 23
23045381 TTACATATAT
23045391 AATTATTTATTTTAAATAAATAAA
1 AATTATTTATTTTAAAT-AATAAA
* * *
23045415 AATTATATATTCTTAAATATTTAA
1 AATTATTTATT-TTAAATAATAAA
23045439 AATTATTTATTTTAAA
1 AATTATTTATTTTAAA
23045455 CATATTTATC
Statistics
Matches: 35, Mismatches: 4, Indels: 3
0.83 0.10 0.07
Matches are distributed among these distances:
23 5 0.14
24 24 0.69
25 6 0.17
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (23 bp):
AATTATTTATTTTAAATAATAAA
Found at i:23048117 original size:15 final size:18
Alignment explanation
Indices: 23048075--23048158 Score: 77
Period size: 18 Copynumber: 4.8 Consensus size: 18
23048065 CTTTTGTTCT
23048075 TGATACATTTGAGGTAGA
1 TGATACATTTGAGGTAGA
* *
23048093 GGATATATTTGA-G-A-A
1 TGATACATTTGAGGTAGA
* *
23048108 TGATACATTTGTGGTGGA
1 TGATACATTTGAGGTAGA
* *
23048126 TGGTACATTTGTGGTA-A
1 TGATACATTTGAGGTAGA
23048143 TTGATACATTTGAGGT
1 -TGATACATTTGAGGT
23048159 GGAGGATATA
Statistics
Matches: 52, Mismatches: 10, Indels: 8
0.74 0.14 0.11
Matches are distributed among these distances:
15 10 0.19
16 2 0.04
17 2 0.04
18 38 0.73
ACGTcount: A:0.29, C:0.05, G:0.29, T:0.38
Consensus pattern (18 bp):
TGATACATTTGAGGTAGA
Found at i:23048166 original size:18 final size:18
Alignment explanation
Indices: 23048076--23048200 Score: 71
Period size: 18 Copynumber: 6.9 Consensus size: 18
23048066 TTTTGTTCTT
*
23048076 GATACATTTGAGGTAGAG
1 GATACATTTGAGGTGGAG
* * *
23048094 GATATATTTGA---GAAT
1 GATACATTTGAGGTGGAG
*
23048109 GATACATTTGTGGTGGATG
1 GATACATTTGAGGTGGA-G
* * *
23048128 G-TACATTTGTGGT-AATT
1 GATACATTTGAGGTGGA-G
23048145 GATACATTTGAGGTGGAG
1 GATACATTTGAGGTGGAG
* * *
23048163 GATATATTTAAGGAGGTGAAA
1 GATACATTT---GAGGTGGAG
23048184 GATACATTTGAGGTGGA
1 GATACATTTGAGGTGGA
23048201 TAATAATCAT
Statistics
Matches: 80, Mismatches: 18, Indels: 18
0.69 0.16 0.16
Matches are distributed among these distances:
15 10 0.12
17 3 0.04
18 50 0.62
19 2 0.03
21 15 0.19
ACGTcount: A:0.31, C:0.04, G:0.31, T:0.34
Consensus pattern (18 bp):
GATACATTTGAGGTGGAG
Found at i:23048217 original size:39 final size:39
Alignment explanation
Indices: 23048145--23048219 Score: 98
Period size: 39 Copynumber: 1.9 Consensus size: 39
23048135 TGTGGTAATT
* *
23048145 GATACATTTGAGGTGGAGGATATATTTAAGGAGGTGAAA
1 GATACATTTGAGGTGGAGAATATATATAAGGAGGTGAAA
* *
23048184 GATACATTTGAGGTGGATAATA-ATCATATGGAGGTG
1 GATACATTTGAGGTGGAGAATATAT-ATAAGGAGGTG
23048220 GATAACCATG
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
38 2 0.06
39 29 0.94
ACGTcount: A:0.35, C:0.04, G:0.32, T:0.29
Consensus pattern (39 bp):
GATACATTTGAGGTGGAGAATATATATAAGGAGGTGAAA
Found at i:23048558 original size:6 final size:6
Alignment explanation
Indices: 23048547--23048580 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
23048537 AAATTCGCAT
* *
23048547 CATCAC CATCAC CATCTC CATCAC CATCAT CATC
1 CATCAC CATCAC CATCAC CATCAC CATCAC CATC
23048581 TGGACTTAAA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
6 25 1.00
ACGTcount: A:0.29, C:0.47, G:0.00, T:0.24
Consensus pattern (6 bp):
CATCAC
Found at i:23048568 original size:18 final size:18
Alignment explanation
Indices: 23048547--23048581 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
23048537 AAATTCGCAT
23048547 CATCACCATCACCATCTC
1 CATCACCATCACCATCTC
*
23048565 CATCACCATCATCATCT
1 CATCACCATCACCATCT
23048582 GGACTTAAAC
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.29, C:0.46, G:0.00, T:0.26
Consensus pattern (18 bp):
CATCACCATCACCATCTC
Found at i:23052043 original size:26 final size:26
Alignment explanation
Indices: 23051994--23052042 Score: 82
Period size: 25 Copynumber: 1.9 Consensus size: 26
23051984 TTATAAAAAT
*
23051994 TAAAAGTTTTCAAACTTATATTTTAA
1 TAAAAGTTTTCAAACCTATATTTTAA
23052020 TAAAA-TTTTCAAACCTATATTTT
1 TAAAAGTTTTCAAACCTATATTTT
23052043 TTATTTTTTA
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.41, C:0.10, G:0.02, T:0.47
Consensus pattern (26 bp):
TAAAAGTTTTCAAACCTATATTTTAA
Found at i:23052288 original size:19 final size:20
Alignment explanation
Indices: 23052266--23052303 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
23052256 AAACAACAAA
*
23052266 AAAATTA-AAATTCATATAC
1 AAAATTATAAATTAATATAC
23052285 AAAATTATAAATTAATATA
1 AAAATTATAAATTAATATA
23052304 TAACACAATC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.61, C:0.05, G:0.00, T:0.34
Consensus pattern (20 bp):
AAAATTATAAATTAATATAC
Found at i:23052591 original size:19 final size:19
Alignment explanation
Indices: 23052567--23052603 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
23052557 CCCCCAACGT
23052567 CCCACCACACCCAATCCTC
1 CCCACCACACCCAATCCTC
* *
23052586 CCCACCCCATCCAATCCT
1 CCCACCACACCCAATCCT
23052604 TCCATGTGCC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 16 1.00
ACGTcount: A:0.24, C:0.62, G:0.00, T:0.14
Consensus pattern (19 bp):
CCCACCACACCCAATCCTC
Found at i:23053967 original size:17 final size:19
Alignment explanation
Indices: 23053947--23053983 Score: 60
Period size: 19 Copynumber: 2.1 Consensus size: 19
23053937 ATATATTACT
23053947 TTATAAA-AAA-ATTATAA
1 TTATAAATAAATATTATAA
23053964 TTATAAATAAATATTATAA
1 TTATAAATAAATATTATAA
23053983 T
1 T
23053984 GAATTATTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
17 7 0.39
18 3 0.17
19 8 0.44
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (19 bp):
TTATAAATAAATATTATAA
Found at i:23056762 original size:15 final size:15
Alignment explanation
Indices: 23056742--23056772 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
23056732 CTAATTAGCT
*
23056742 TTGATTTCTCTATCC
1 TTGATTCCTCTATCC
23056757 TTGATTCCTCTATCC
1 TTGATTCCTCTATCC
23056772 T
1 T
23056773 GGATGACCCG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.29, G:0.06, T:0.52
Consensus pattern (15 bp):
TTGATTCCTCTATCC
Found at i:23064735 original size:18 final size:17
Alignment explanation
Indices: 23064691--23064735 Score: 54
Period size: 18 Copynumber: 2.5 Consensus size: 17
23064681 AATAAAAGTT
* *
23064691 ATTTTTATAAGTCTCAA
1 ATTTTTATAAGTATAAA
23064708 ATCTTTTATAAGTATAAA
1 AT-TTTTATAAGTATAAA
23064726 ATTTTATATA
1 ATTTT-TATA
23064736 TTTTATATGT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 5 0.21
18 19 0.79
ACGTcount: A:0.40, C:0.07, G:0.04, T:0.49
Consensus pattern (17 bp):
ATTTTTATAAGTATAAA
Found at i:23068590 original size:39 final size:40
Alignment explanation
Indices: 23068547--23068622 Score: 127
Period size: 39 Copynumber: 1.9 Consensus size: 40
23068537 TTCTTCAATC
* *
23068547 ATTCTTCCAGAACCATATCTAGGTTTTATGC-CGCGCGTG
1 ATTCTTCCAGAACCATATCCAGGTTTTAGGCACGCGCGTG
23068586 ATTCTTCCAGAACCATATCCAGGTTTTAGGCACGCGC
1 ATTCTTCCAGAACCATATCCAGGTTTTAGGCACGCGC
23068623 CTGAAAGCTA
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
39 29 0.85
40 5 0.15
ACGTcount: A:0.22, C:0.28, G:0.20, T:0.30
Consensus pattern (40 bp):
ATTCTTCCAGAACCATATCCAGGTTTTAGGCACGCGCGTG
Found at i:23072926 original size:23 final size:22
Alignment explanation
Indices: 23072885--23072927 Score: 59
Period size: 22 Copynumber: 1.9 Consensus size: 22
23072875 ACATCTAAAA
*
23072885 TTTTTATTTTATATTTTAAATT
1 TTTTTATTTTATATATTAAATT
*
23072907 TTTTTATTTTTTAATATTAAA
1 TTTTTATTTTAT-ATATTAAA
23072928 AAATATAAAA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
22 11 0.61
23 7 0.39
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (22 bp):
TTTTTATTTTATATATTAAATT
Found at i:23077425 original size:2 final size:2
Alignment explanation
Indices: 23077418--23077450 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
23077408 TGGTCAGTTG
23077418 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
23077451 GAGAGAGAGA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:23082021 original size:22 final size:22
Alignment explanation
Indices: 23081996--23082040 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
23081986 TTGACAATAA
23081996 ATTTATAA-ATAATGTAATATTT
1 ATTTATAATATAAT-TAATATTT
* *
23082018 ATTTTTAATATAATTAATTTTT
1 ATTTATAATATAATTAATATTT
23082040 A
1 A
23082041 AATGATTACT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
22 15 0.75
23 5 0.25
ACGTcount: A:0.42, C:0.00, G:0.02, T:0.56
Consensus pattern (22 bp):
ATTTATAATATAATTAATATTT
Found at i:23083463 original size:16 final size:17
Alignment explanation
Indices: 23083442--23083475 Score: 61
Period size: 17 Copynumber: 2.1 Consensus size: 17
23083432 ATGTGCCATA
23083442 TATAAT-ATTTTAAAAT
1 TATAATAATTTTAAAAT
23083458 TATAATAATTTTAAAAT
1 TATAATAATTTTAAAAT
23083475 T
1 T
23083476 TTTATTTAAA
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
16 6 0.35
17 11 0.65
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (17 bp):
TATAATAATTTTAAAAT
Found at i:23086125 original size:30 final size:30
Alignment explanation
Indices: 23086091--23086155 Score: 96
Period size: 30 Copynumber: 2.2 Consensus size: 30
23086081 TATTGTTATT
23086091 CAATT-AAGTCTTTAAACATTTATTTTCACC
1 CAATTGAA-TCTTTAAACATTTATTTTCACC
* *
23086121 CAATTGAATTTTTAAATATTTATTTTCACC
1 CAATTGAATCTTTAAACATTTATTTTCACC
23086151 CAATT
1 CAATT
23086156 TAACATTTGT
Statistics
Matches: 32, Mismatches: 2, Indels: 2
0.89 0.06 0.06
Matches are distributed among these distances:
30 30 0.94
31 2 0.06
ACGTcount: A:0.34, C:0.17, G:0.03, T:0.46
Consensus pattern (30 bp):
CAATTGAATCTTTAAACATTTATTTTCACC
Found at i:23086413 original size:15 final size:16
Alignment explanation
Indices: 23086393--23086435 Score: 52
Period size: 15 Copynumber: 2.8 Consensus size: 16
23086383 AAATTCTGTC
* *
23086393 AATATTTTTATTAA-A
1 AATATTTATATAAATA
23086408 AATATTTATATAAATA
1 AATATTTATATAAATA
*
23086424 AATATATATATA
1 AATATTTATATA
23086436 TTTTTTAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
15 12 0.50
16 12 0.50
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (16 bp):
AATATTTATATAAATA
Found at i:23094633 original size:8 final size:8
Alignment explanation
Indices: 23094618--23094724 Score: 159
Period size: 8 Copynumber: 13.8 Consensus size: 8
23094608 CTATGCTTGA
23094618 AAAAAATG
1 AAAAAATG
*
23094626 ACAAAATG
1 AAAAAATG
23094634 AAAAAATG
1 AAAAAATG
23094642 -AAAAATG
1 AAAAAATG
23094649 AAAAAATG
1 AAAAAATG
23094657 AAAAAAT-
1 AAAAAATG
23094664 AAAAAATG
1 AAAAAATG
23094672 -AAAAATG
1 AAAAAATG
23094679 AAAAAATG
1 AAAAAATG
23094687 AAAAAATG
1 AAAAAATG
23094695 -AAAAATG
1 AAAAAATG
23094702 AAAAAATG
1 AAAAAATG
*
23094710 AAAATGATG
1 AAAA-AATG
23094719 AAAAAA
1 AAAAAA
23094725 AGTGAACAAT
Statistics
Matches: 90, Mismatches: 4, Indels: 10
0.87 0.04 0.10
Matches are distributed among these distances:
7 28 0.31
8 55 0.61
9 7 0.08
ACGTcount: A:0.74, C:0.01, G:0.12, T:0.13
Consensus pattern (8 bp):
AAAAAATG
Found at i:23094646 original size:15 final size:15
Alignment explanation
Indices: 23094618--23094723 Score: 144
Period size: 15 Copynumber: 6.9 Consensus size: 15
23094608 CTATGCTTGA
23094618 AAAAAATGACAAAATG
1 AAAAAATGA-AAAATG
23094634 AAAAAATGAAAAATG
1 AAAAAATGAAAAATG
23094649 AAAAAATGAAAAAAT-
1 AAAAAATG-AAAAATG
23094664 AAAAAATGAAAAATG
1 AAAAAATGAAAAATG
23094679 AAAAAATGAAAAAATG
1 AAAAAATG-AAAAATG
23094695 -AAAAATGAAAAAATG
1 AAAAAATG-AAAAATG
*
23094710 AAAATGATGAAAAA
1 AAAA-AATGAAAAA
23094724 AAGTGAACAA
Statistics
Matches: 84, Mismatches: 1, Indels: 10
0.88 0.01 0.11
Matches are distributed among these distances:
14 6 0.07
15 45 0.54
16 30 0.36
17 3 0.04
ACGTcount: A:0.74, C:0.01, G:0.12, T:0.13
Consensus pattern (15 bp):
AAAAAATGAAAAATG
Found at i:23094649 original size:23 final size:22
Alignment explanation
Indices: 23094619--23094723 Score: 156
Period size: 23 Copynumber: 4.5 Consensus size: 22
23094609 TATGCTTGAA
23094619 AAAAATGACAAAATGAAAAAATG
1 AAAAATGA-AAAATGAAAAAATG
*
23094642 AAAAATGAAAAAATGAAAAAATA
1 AAAAATG-AAAAATGAAAAAATG
23094665 AAAAATGAAAAATGAAAAAATG
1 AAAAATGAAAAATGAAAAAATG
23094687 AAAAAATGAAAAATGAAAAAATG
1 -AAAAATGAAAAATGAAAAAATG
23094710 AAAATGATGAAAAA
1 AAAA--ATGAAAAA
23094724 AAGTGAACAA
Statistics
Matches: 76, Mismatches: 2, Indels: 7
0.89 0.02 0.08
Matches are distributed among these distances:
22 18 0.24
23 49 0.64
24 9 0.12
ACGTcount: A:0.73, C:0.01, G:0.12, T:0.13
Consensus pattern (22 bp):
AAAAATGAAAAATGAAAAAATG
Found at i:23095784 original size:40 final size:40
Alignment explanation
Indices: 23095740--23096277 Score: 437
Period size: 39 Copynumber: 14.1 Consensus size: 40
23095730 GTCTATGAGT
23095740 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
23095780 ATTTACTTTTCAAAG-TCGTGGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
* * * *
23095821 AATTAC-TTTCCAA-TACG-AG--TC--TTTAGA-GAGCA
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
23095853 ATTTAC-TTTC--A--T--TTGCCT-TGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
*
23095885 ATTTAC--TTCCAAGTTCCGTTGCCTCTGTTTAG-GGAGCA
1 ATTTACTTTTCAAAGTT-CGTTGCCTCTGTTTAGAGGAGCA
23095923 ATTTACTTTTCAAAG-TCGTGGTGCCTCTG-TTAGAGGAGCA
1 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
* *
23095963 ATTTA----TCCAAGTTC-TTG-CTATGTTTAGAGGA-CA
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
* *
23095996 ATTTACTTTT-AAAATGT-GGTGCCTCTGTTTAGAGGAGCA
1 ATTTACTTTTCAAAGT-TCGTTGCCTCTGTTTAGAGGAGCA
23096035 ATTTACTTTTC-AAGTTCGTTGCCTCTGTTTAGAAGGAGCA
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAG-AGGAGCA
*
23096075 ATTTAC-TTTC-AA--TCGTTGCCTCT-TTTAGATGAGCA
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
* *
23096110 A-TTAC-TTTCCAAGTTCGTTG-CTCTATTTAGAGGAGCA
1 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
* * *
23096147 ATTTACTTTTCAAAG-TCATGTTGCCTTTGTTTTTTGAGGAGTA
1 ATTTACTTTTCAAAGTTC--GTTGCCTCTG--TTTAGAGGAGCA
* *
23096190 A--TACTTTTCAAAG-TCGTGGTGCTTCTGTTTAGAGGAGTA
1 ATTTACTTTTCAAAGTTCGT--TGCCTCTGTTTAGAGGAGCA
23096229 ATTTAACTTTTTCCCAAAGTTC-TGTGCCTCTTGTTTAGAGGAGCA
1 ATTT-AC-TTTT--CAAAGTTCGT-TGCCTC-TGTTTAGAGGAGCA
23096274 ATTT
1 ATTT
23096278 TTATGTTTCT
Statistics
Matches: 414, Mismatches: 28, Indels: 107
0.75 0.05 0.19
Matches are distributed among these distances:
28 1 0.00
30 2 0.00
31 9 0.02
32 25 0.06
33 18 0.04
34 18 0.04
35 12 0.03
36 18 0.04
37 36 0.09
38 41 0.10
39 72 0.17
40 65 0.16
41 49 0.12
42 2 0.00
43 15 0.04
44 6 0.01
45 23 0.06
46 2 0.00
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.40
Consensus pattern (40 bp):
ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCA
Found at i:23095941 original size:143 final size:150
Alignment explanation
Indices: 23095740--23096276 Score: 487
Period size: 143 Copynumber: 3.6 Consensus size: 150
23095730 GTCTATGAGT
*
23095740 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCC
1 ATTTAC-TTTCCAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCC
*
23095805 TCTGTTTAGAGGAGCAAATTACTTTCCAA-TAC-G-AGTCTTTAGA-GAGCAATTTAC-TTT-CA
65 TCTGTTTAGAGGAGC-AATTACTTTCCAAGTACTGCA-TCTTTAGAGGA-CAATTTACTTTTAAA
23095864 T-T-TGCCT-TGTTTAGAGGAGCA
127 TGTGTGCCTCTGTTTAGAGGAGCA
23095885 ATTTAC-TTCCAAGTTCCGTTGCCTCTGTTTAG-GGAGCAATTTACTTTTCAAAGTCGTGGTGCC
1 ATTTACTTTCCAAGTT-CGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCC
* * *
23095948 TCTG-TTAGAGGAGCAATT--TATCCAAGTTCTTGCTATGTTTAGAGGACAATTTACTTTTAAAA
65 TCTGTTTAGAGGAGCAATTACTTTCCAAGTAC-TGC-ATCTTTAGAGGACAATTTACTTTT-AAA
23096010 TGTGGTGCCTCTGTTTAGAGGAGCA
127 TGT-GTGCCTCTGTTTAGAGGAGCA
*
23096035 ATTTACTTTTCAAGTTCGTTGCCTCTGTTTAGAAGGAGCAATTTAC-TTTC-AA-TCGT--TGCC
1 ATTTACTTTCCAAGTTCGTTGCCTCTGTTTAG-AGGAGCAATTTACTTTTCAAAGTCGTGGTGCC
* *
23096095 TCT-TTTAGATGAGCAATTACTTTCCAAGTTCGTTGC-TCTATTTAGAGGAGCAATTTACTTTTC
65 TCTGTTTAGAGGAGCAATTACTTTCCAAGTAC--TGCATC--TTTAGAGGA-CAATTTACTTTT-
* * * *
23096158 AAAGTCATGTTGCCTTTGTTTTTTGAGGAGTA
124 AAA-T-GTG-TGCCTCTG--TTTAGAGGAGCA
* * *
23096190 A--TACTTTTCAAAG-TCGTGGTGCTTCTGTTTAGAGGAGTAATTTAACTTTTTCCCAAAGTTC-
1 ATTTAC-TTTCCAAGTTCGT--TGCCTCTGTTTAGAGGAGCAATTT-AC-TTTT--CAAAG-TCG
23096251 T-GTGCCTCTTGTTTAGAGGAGCAATT
58 TGGTGCCTC-TGTTTAGAGGAGCAATT
23096277 TTTATGTTTC
Statistics
Matches: 330, Mismatches: 19, Indels: 67
0.79 0.05 0.16
Matches are distributed among these distances:
139 6 0.02
140 2 0.01
141 4 0.01
142 11 0.03
143 58 0.18
144 22 0.07
145 6 0.02
146 2 0.01
147 21 0.06
148 1 0.00
149 19 0.06
150 51 0.15
151 27 0.08
152 14 0.04
153 15 0.05
154 16 0.05
155 25 0.08
157 3 0.01
159 1 0.00
160 2 0.01
161 1 0.00
162 8 0.02
163 1 0.00
164 14 0.04
ACGTcount: A:0.23, C:0.17, G:0.20, T:0.39
Consensus pattern (150 bp):
ATTTACTTTCCAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCCT
CTGTTTAGAGGAGCAATTACTTTCCAAGTACTGCATCTTTAGAGGACAATTTACTTTTAAATGTG
TGCCTCTGTTTAGAGGAGCA
Found at i:23096043 original size:112 final size:112
Alignment explanation
Indices: 23095756--23096177 Score: 318
Period size: 112 Copynumber: 3.8 Consensus size: 112
23095746 TTTTCAAAGT
* *
23095756 TCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTC-AAAGTCGTGGTGCCTCTGTTTAGAGGAGC
1 TCGTTGCCTAT-TTTAGAGGAGCAA-TTAC-TTTCAAAATTC--GGTGCCTCTGTTTAGAGGAGC
* * * *
23095820 AAATTAC-TTTCCAA-TAC--GAG--TCT-TTAG-A-GAGCAATTTACTTTC-A
61 AATTTACTTTTCAAAGT-CGTGTGCCTCTGTTAGAAGGAGCAATTTAC-TCCAA
* * *
23095864 T--TTGCCT-TGTTTAGAGGAGCAATTTAC-TTCCAAGTTCCGTTGCCTCTGTTTAG-GGAGCAA
1 TCGTTGCCTAT-TTTAGAGGAGCAA-TTACTTTCAAAATT-CGGTGCCTCTGTTTAGAGGAGCAA
23095924 TTTACTTTTCAAAGTCGTGGTGCCTCTGTTAG-AGGAGCAATTTA-TCCAA
63 TTTACTTTTCAAAGTCGT-GTGCCTCTGTTAGAAGGAGCAATTTACTCCAA
*
23095973 GTTC-TTG-CTATGTTTAGAGGA-CAATTTACTTTTAAAATGT-GGTGCCTCTGTTTAGAGGAGC
1 --TCGTTGCCTAT-TTTAGAGGAGCAA-TTACTTTCAAAAT-TCGGTGCCTCTGTTTAGAGGAGC
*
23096034 AATTTACTTTTC-AAGTTCGT-TGCCTCTGTTTAGAAGGAGCAATTTACTTTCAA
61 AATTTACTTTTCAAAG-TCGTGTGCCTCTG-TTAGAAGGAGCAATTTAC-TCCAA
* * * * * *
23096087 TCGTTGCCTCTTTTAGATGAGCAATTACTTTCCAAGTTCGTTG-CTCTATTTAGAGGAGCAATTT
1 TCGTTGCCTATTTTAGAGGAGCAATTACTTTCAAAATTCGGTGCCTCTGTTTAGAGGAGCAATTT
* *
23096151 ACTTTTCAAAGTCATGTTGCCTTTGTT
66 ACTTTTCAAAGTCGTG-TGCCTCTGTT
23096178 TTTTGAGGAG
Statistics
Matches: 262, Mismatches: 21, Indels: 57
0.77 0.06 0.17
Matches are distributed among these distances:
102 11 0.04
103 24 0.09
104 4 0.02
105 21 0.08
106 8 0.03
108 6 0.02
109 6 0.02
110 18 0.07
111 32 0.12
112 85 0.32
113 30 0.11
114 17 0.06
ACGTcount: A:0.23, C:0.18, G:0.20, T:0.39
Consensus pattern (112 bp):
TCGTTGCCTATTTTAGAGGAGCAATTACTTTCAAAATTCGGTGCCTCTGTTTAGAGGAGCAATTT
ACTTTTCAAAGTCGTGTGCCTCTGTTAGAAGGAGCAATTTACTCCAA
Found at i:23096131 original size:150 final size:147
Alignment explanation
Indices: 23095740--23096156 Score: 506
Period size: 143 Copynumber: 2.8 Consensus size: 147
23095730 GTCTATGAGT
23095740 ATTTACTTTTCAAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGGTGCC
1 ATTTACTTTTC-AAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGT-GTGCC
* * * *
23095805 TCTGTTTAGAGGAGCAAATTACTTTCCAA-TACG-AG--TCTTTAGA-GAGCAATTTAC-TTTCA
64 TCT-TTTAGAGGAGC-AATTACTTTCCAAGTTCGTTGCTTATTTAGAGGAGCAATTTACTTTTAA
23095864 TTTGCCTTGTTTAGAGGAGCA
127 TTTGCCTTGTTTAGAGGAGCA
*
23095885 ATTTAC-TTCCAAGTTCCGTTGCCTCTGTTTAG-GGAGCAATTTACTTTTCAAAGTCGTGGTGCC
1 ATTTACTTTTCAAGTT-CGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGT-GTGCC
* * *
23095948 TCTGTTAGAGGAGCAATT--TATCCAAGTTC-TTGCTATGTTTAGAGGA-CAATTTACTTTTAAA
64 TCTTTTAGAGGAGCAATTACTTTCCAAGTTCGTTGCT-TATTTAGAGGAGCAATTTACTTTT--A
23096009 ATGTGGTGCCTCTGTTTAGAGGAGCA
126 AT-T--TGCCT-TGTTTAGAGGAGCA
23096035 ATTTACTTTTCAAGTTCGTTGCCTCTGTTTAGAAGGAGCAATTTAC-TTTC-AA-TCGT-TGCCT
1 ATTTACTTTTCAAGTTCGTTGCCTCTGTTTAG-AGGAGCAATTTACTTTTCAAAGTCGTGTGCCT
*
23096096 CTTTTAGATGAGCAATTACTTTCCAAGTTCGTTGCTCTATTTAGAGGAGCAATTTACTTTT
65 CTTTTAGAGGAGCAATTACTTTCCAAGTTCGTTGCT-TATTTAGAGGAGCAATTTACTTTT
23096157 CAAAGTCATG
Statistics
Matches: 238, Mismatches: 13, Indels: 36
0.83 0.05 0.13
Matches are distributed among these distances:
139 6 0.03
140 3 0.01
141 4 0.02
142 10 0.04
143 54 0.23
144 24 0.10
145 6 0.03
146 2 0.01
147 21 0.09
149 19 0.08
150 53 0.22
151 24 0.10
152 12 0.05
ACGTcount: A:0.24, C:0.18, G:0.20, T:0.39
Consensus pattern (147 bp):
ATTTACTTTTCAAGTTCGTTGCCTCTGTTTAGAGGAGCAATTTACTTTTCAAAGTCGTGTGCCTC
TTTTAGAGGAGCAATTACTTTCCAAGTTCGTTGCTTATTTAGAGGAGCAATTTACTTTTAATTTG
CCTTGTTTAGAGGAGCA
Found at i:23096345 original size:16 final size:16
Alignment explanation
Indices: 23096324--23096364 Score: 73
Period size: 16 Copynumber: 2.6 Consensus size: 16
23096314 AAGCTTTGAT
23096324 AAAAAAAAAAAAAACA
1 AAAAAAAAAAAAAACA
*
23096340 AAAAAAACAAAAAACA
1 AAAAAAAAAAAAAACA
23096356 AAAAAAAAA
1 AAAAAAAAA
23096365 CACAAAAAAT
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (16 bp):
AAAAAAAAAAAAAACA
Found at i:23096371 original size:7 final size:7
Alignment explanation
Indices: 23096325--23096373 Score: 55
Period size: 7 Copynumber: 6.9 Consensus size: 7
23096315 AGCTTTGATA
*
23096325 AAAAAAA
1 AAAAAAC
23096332 AAAAAAC
1 AAAAAAC
23096339 AAAAAAAAC
1 --AAAAAAC
23096348 AAAAAAC
1 AAAAAAC
23096355 AAAAAA-
1 AAAAAAC
*
23096361 AAAACAC
1 AAAAAAC
23096368 AAAAAA
1 AAAAAA
23096374 TATATATATA
Statistics
Matches: 36, Mismatches: 3, Indels: 6
0.80 0.07 0.13
Matches are distributed among these distances:
6 5 0.14
7 24 0.67
9 7 0.19
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (7 bp):
AAAAAAC
Found at i:23096373 original size:1 final size:1
Alignment explanation
Indices: 23096324--23096364 Score: 55
Period size: 1 Copynumber: 41.0 Consensus size: 1
23096314 AAGCTTTGAT
* * *
23096324 AAAAAAAAAAAAAACAAAAAAAACAAAAAACAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAAA
23096365 CACAAAAAAT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
1 34 1.00
ACGTcount: A:0.93, C:0.07, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Found at i:23096586 original size:9 final size:8
Alignment explanation
Indices: 23096566--23096603 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
23096556 TCCTGTATTG
*
23096566 TTTTTTTC
1 TTTTTTCC
23096574 TTTTTTCC
1 TTTTTTCC
23096582 TTTTTTCTC
1 TTTTTTC-C
23096591 TTTTTT-C
1 TTTTTTCC
23096598 TTTTTT
1 TTTTTT
23096604 GTATATCTGT
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
7 7 0.25
8 14 0.50
9 7 0.25
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (8 bp):
TTTTTTCC
Found at i:23096586 original size:17 final size:16
Alignment explanation
Indices: 23096566--23096603 Score: 60
Period size: 16 Copynumber: 2.4 Consensus size: 16
23096556 TCCTGTATTG
23096566 TTTTTT-TCTTTTTTCC
1 TTTTTTCTCTTTTTT-C
23096582 TTTTTTCTCTTTTTTC
1 TTTTTTCTCTTTTTTC
23096598 TTTTTT
1 TTTTTT
23096604 GTATATCTGT
Statistics
Matches: 21, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
16 13 0.62
17 8 0.38
ACGTcount: A:0.00, C:0.16, G:0.00, T:0.84
Consensus pattern (16 bp):
TTTTTTCTCTTTTTTC
Found at i:23096820 original size:17 final size:17
Alignment explanation
Indices: 23096775--23096817 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
23096765 TTGTTATTTT
23096775 TTTTTATTTATCCTATC
1 TTTTTATTTATCCTATC
*
23096792 TTTTCTAATTAT-CTATC
1 TTTT-TATTTATCCTATC
23096809 TTTTTATTT
1 TTTTTATTT
23096818 TATTTGATTT
Statistics
Matches: 23, Mismatches: 2, Indels: 3
0.82 0.07 0.11
Matches are distributed among these distances:
16 4 0.17
17 13 0.57
18 6 0.26
ACGTcount: A:0.19, C:0.14, G:0.00, T:0.67
Consensus pattern (17 bp):
TTTTTATTTATCCTATC
Found at i:23097692 original size:27 final size:26
Alignment explanation
Indices: 23097660--23097726 Score: 71
Period size: 27 Copynumber: 2.5 Consensus size: 26
23097650 TATTTGTTTA
23097660 TTTATTTTATTTATTTATTATATTAGG
1 TTTATTTTATTTATTT-TTATATTAGG
* * * *
23097687 TTTATTTAATATTCTTTTTATCTTAGT
1 TTTATTTTAT-TTATTTTTATATTAGG
23097714 TTTATTTTTATTT
1 TTTA-TTTTATTT
23097727 TTGTTTTACT
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
27 23 0.70
28 10 0.30
ACGTcount: A:0.22, C:0.03, G:0.04, T:0.70
Consensus pattern (26 bp):
TTTATTTTATTTATTTTTATATTAGG
Found at i:23097723 original size:17 final size:18
Alignment explanation
Indices: 23097700--23097742 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
23097690 ATTTAATATT
23097700 CTTTTTATCTTAGTTTTA
1 CTTTTTATCTTAGTTTTA
* *
23097718 -TTTTTATTTTTGTTTTA
1 CTTTTTATCTTAGTTTTA
23097735 CTTTTTAT
1 CTTTTTAT
23097743 TATTCATTTA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
17 15 0.68
18 7 0.32
ACGTcount: A:0.14, C:0.07, G:0.05, T:0.74
Consensus pattern (18 bp):
CTTTTTATCTTAGTTTTA
Found at i:23097924 original size:60 final size:60
Alignment explanation
Indices: 23097781--23098193 Score: 578
Period size: 59 Copynumber: 7.0 Consensus size: 60
23097771 TTTCTTCAAA
23097781 TAAAAATCAAATTTTTCAAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAATCAAA-TTTTC-AAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
* * *
23097843 T-AAGATCAAAGTTTCAAAAAAAATATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAATCAAATTTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
*
23097902 TAAAAAT-AAATTTCCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAATCAAATTTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
* * *
23097961 TAAAAAT-AAATTTTC---AAAAAGATTTTTGAGGAAAAGTTGAAAGTATCAATTTTCTT
1 TAAAAATCAAATTTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
*
23098017 TGAAAATCGAAATTTTC-AAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
1 TAAAAATC-AAATTTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
* * * *
23098077 TAGAAAT-AAATTTTCAAAAAAAAGGATTTTTGAGGAAAAGTTGAAAGTATCAGTTTTCCT
1 TAAAAATCAAATTTTCAAAAAAAA-TATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
* *
23098137 TGAAAATCGAAA-TTTC-CAAAAAATA-TTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
1 TAAAAATC-AAATTTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCC
23098194 CTACACAAAA
Statistics
Matches: 316, Mismatches: 26, Indels: 22
0.87 0.07 0.06
Matches are distributed among these distances:
56 44 0.14
58 46 0.15
59 115 0.36
60 95 0.30
61 12 0.04
62 4 0.01
ACGTcount: A:0.44, C:0.08, G:0.14, T:0.34
Consensus pattern (60 bp):
TAAAAATCAAATTTTCAAAAAAAATATTTTTGGGGAAAAGTTGAAAGTATCAATTTTCCT
Found at i:23098244 original size:13 final size:13
Alignment explanation
Indices: 23098228--23098253 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
23098218 CATTCCTTTC
23098228 TATTTTGATTTTT
1 TATTTTGATTTTT
23098241 TATTTTGATTTTT
1 TATTTTGATTTTT
23098254 CTTTAACTAA
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:0.15, C:0.00, G:0.08, T:0.77
Consensus pattern (13 bp):
TATTTTGATTTTT
Found at i:23103483 original size:14 final size:13
Alignment explanation
Indices: 23103458--23103492 Score: 52
Period size: 14 Copynumber: 2.6 Consensus size: 13
23103448 TCAATGATTT
*
23103458 TATTAAAAATATA
1 TATTAAATATATA
23103471 TATCTAAATATATA
1 TAT-TAAATATATA
23103485 TATTAAAT
1 TATTAAAT
23103493 TTTTTTTAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.43
Consensus pattern (13 bp):
TATTAAATATATA
Found at i:23104464 original size:31 final size:33
Alignment explanation
Indices: 23104426--23104491 Score: 84
Period size: 32 Copynumber: 2.1 Consensus size: 33
23104416 ACAGAAGATG
23104426 ATTATTTAA-ATT-TATCATAATTTTTA-AAAAT
1 ATTATTTAATATTAT-TCATAATTTTTATAAAAT
* *
23104457 ATTATTTAATATTATTTATATTTTTTATAAAAT
1 ATTATTTAATATTATTCATAATTTTTATAAAAT
23104490 AT
1 AT
23104492 CCCTGTATTA
Statistics
Matches: 30, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
31 9 0.30
32 13 0.43
33 8 0.27
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (33 bp):
ATTATTTAATATTATTCATAATTTTTATAAAAT
Found at i:23104577 original size:45 final size:46
Alignment explanation
Indices: 23104510--23104598 Score: 153
Period size: 45 Copynumber: 2.0 Consensus size: 46
23104500 TATTTTTAAT
*
23104510 TTTTAAATATATTAGTTTTAGATAAAGATAATTTTAATAAACAAAA
1 TTTTAAATATATTAGTTATAGATAAAGATAATTTTAATAAACAAAA
*
23104556 TTTTAAATAT-TTAGTTATAGATAAATATAATTTTAATAAACAA
1 TTTTAAATATATTAGTTATAGATAAAGATAATTTTAATAAACAA
23104599 TCTACCAATT
Statistics
Matches: 41, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
45 31 0.76
46 10 0.24
ACGTcount: A:0.49, C:0.02, G:0.06, T:0.43
Consensus pattern (46 bp):
TTTTAAATATATTAGTTATAGATAAAGATAATTTTAATAAACAAAA
Found at i:23105058 original size:18 final size:19
Alignment explanation
Indices: 23105022--23105060 Score: 53
Period size: 18 Copynumber: 2.1 Consensus size: 19
23105012 TTCATTTATT
*
23105022 TATACAGATGAAATCACAA
1 TATACAGATGAAATAACAA
*
23105041 TATACA-ATTAAATAACAA
1 TATACAGATGAAATAACAA
23105059 TA
1 TA
23105061 AAAGAAAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
18 12 0.67
19 6 0.33
ACGTcount: A:0.56, C:0.13, G:0.05, T:0.26
Consensus pattern (19 bp):
TATACAGATGAAATAACAA
Found at i:23108885 original size:2 final size:2
Alignment explanation
Indices: 23108878--23108910 Score: 66
Period size: 2 Copynumber: 16.5 Consensus size: 2
23108868 TTCAGATTTC
23108878 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG A
23108911 TGATAACCTG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 31 1.00
ACGTcount: A:0.52, C:0.00, G:0.48, T:0.00
Consensus pattern (2 bp):
AG
Found at i:23124330 original size:22 final size:22
Alignment explanation
Indices: 23124262--23124328 Score: 68
Period size: 20 Copynumber: 3.1 Consensus size: 22
23124252 AAAAATTATT
* *
23124262 TTTAATTATTTAATTATATAAT-
1 TTTAA-TATTTAAATAAATAATA
* *
23124284 TAT-ATATTTAAATATATAATA
1 TTTAATATTTAAATAAATAATA
23124305 TTTAATATTTAAA-AAATAATA
1 TTTAATATTTAAATAAATAATA
23124326 TTT
1 TTT
23124329 TATTAATTTC
Statistics
Matches: 39, Mismatches: 4, Indels: 5
0.81 0.08 0.10
Matches are distributed among these distances:
20 15 0.38
21 13 0.33
22 11 0.28
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (22 bp):
TTTAATATTTAAATAAATAATA
Found at i:23126517 original size:2 final size:2
Alignment explanation
Indices: 23126510--23126542 Score: 50
Period size: 2 Copynumber: 17.0 Consensus size: 2
23126500 AGACCTGCAT
*
23126510 TA TA TA TA TA TA TA TA TA T- TA TA TA TT TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23126543 AAAGAAAATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
1 1 0.04
2 27 0.96
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:23128234 original size:23 final size:23
Alignment explanation
Indices: 23128190--23128244 Score: 56
Period size: 23 Copynumber: 2.4 Consensus size: 23
23128180 GACTAAAATT
* *
23128190 TTATATTATATTACATTTATATC
1 TTATATTATATCACATTCATATC
* * *
23128213 TTATTTTATATCATATTCATATT
1 TTATATTATATCACATTCATATC
*
23128236 TTAAATTAT
1 TTATATTAT
23128245 CAAATTTAAT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
23 25 1.00
ACGTcount: A:0.35, C:0.07, G:0.00, T:0.58
Consensus pattern (23 bp):
TTATATTATATCACATTCATATC
Found at i:23128244 original size:28 final size:28
Alignment explanation
Indices: 23128187--23128244 Score: 64
Period size: 28 Copynumber: 2.1 Consensus size: 28
23128177 CATGACTAAA
* **
23128187 ATTTTATATTATATTACATTTATATCTT
1 ATTTTATATCATATTACATTTATAAATT
*
23128215 ATTTTATATCATATT-CATATTTTAAATT
1 ATTTTATATCATATTACAT-TTATAAATT
23128243 AT
1 AT
23128245 CAAATTTAAT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
27 3 0.12
28 22 0.88
ACGTcount: A:0.34, C:0.07, G:0.00, T:0.59
Consensus pattern (28 bp):
ATTTTATATCATATTACATTTATAAATT
Found at i:23142871 original size:15 final size:15
Alignment explanation
Indices: 23142851--23142883 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
23142841 ACATATATTG
23142851 ATATTATCATAATTA
1 ATATTATCATAATTA
*
23142866 ATATTATCGTAATTA
1 ATATTATCATAATTA
23142881 ATA
1 ATA
23142884 CTAATTACTA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.45, C:0.06, G:0.03, T:0.45
Consensus pattern (15 bp):
ATATTATCATAATTA
Found at i:23156234 original size:18 final size:19
Alignment explanation
Indices: 23156198--23156235 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 19
23156188 TCCATTCCAT
*
23156198 CAGTCTTCACAAACAAAAA
1 CAGTCATCACAAACAAAAA
*
23156217 CAGTCATCA-AAACCAAAA
1 CAGTCATCACAAACAAAAA
23156235 C
1 C
23156236 CCGATCATCA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
18 9 0.53
19 8 0.47
ACGTcount: A:0.53, C:0.29, G:0.05, T:0.13
Consensus pattern (19 bp):
CAGTCATCACAAACAAAAA
Found at i:23166090 original size:22 final size:22
Alignment explanation
Indices: 23166065--23166114 Score: 91
Period size: 22 Copynumber: 2.3 Consensus size: 22
23166055 CACTGAACTG
23166065 GTAAAAATCTAATATTTCAGTT
1 GTAAAAATCTAATATTTCAGTT
*
23166087 GTAAAAATCTAATATTTCATTT
1 GTAAAAATCTAATATTTCAGTT
23166109 GTAAAA
1 GTAAAA
23166115 CTTAGGTTCA
Statistics
Matches: 27, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 27 1.00
ACGTcount: A:0.44, C:0.08, G:0.08, T:0.40
Consensus pattern (22 bp):
GTAAAAATCTAATATTTCAGTT
Found at i:23176335 original size:7 final size:7
Alignment explanation
Indices: 23176323--23176360 Score: 53
Period size: 7 Copynumber: 5.7 Consensus size: 7
23176313 ATTATAAGTA
23176323 TTAAATT
1 TTAAATT
23176330 TTAAATT
1 TTAAATT
23176337 TTAAA-T
1 TTAAATT
23176343 TTAAA-T
1 TTAAATT
*
23176349 ATAAATT
1 TTAAATT
23176356 TTAAA
1 TTAAA
23176361 AATAATTATA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
6 11 0.39
7 17 0.61
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (7 bp):
TTAAATT
Found at i:23176347 original size:13 final size:14
Alignment explanation
Indices: 23176323--23176360 Score: 53
Period size: 13 Copynumber: 2.9 Consensus size: 14
23176313 ATTATAAGTA
23176323 TTAAATTTTAAATT
1 TTAAATTTTAAATT
23176337 TTAAA-TTTAAA-T
1 TTAAATTTTAAATT
*
23176349 ATAAATTTTAAA
1 TTAAATTTTAAA
23176361 AATAATTATA
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 5 0.23
13 12 0.55
14 5 0.23
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (14 bp):
TTAAATTTTAAATT
Found at i:23176365 original size:13 final size:13
Alignment explanation
Indices: 23176324--23176365 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
23176314 TTATAAGTAT
*
23176324 TAAATTTTAAATTT
1 TAAATTTTAAA-TA
23176338 TAAA-TTTAAATA
1 TAAATTTTAAATA
*
23176350 TAAATTTTAAAAA
1 TAAATTTTAAATA
23176363 TAA
1 TAA
23176366 TTATATATAT
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
12 5 0.20
13 16 0.64
14 4 0.16
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (13 bp):
TAAATTTTAAATA
Found at i:23176370 original size:19 final size:19
Alignment explanation
Indices: 23176326--23176370 Score: 54
Period size: 19 Copynumber: 2.4 Consensus size: 19
23176316 ATAAGTATTA
* **
23176326 AATTTTAAATTTTAAATTT
1 AATTATAAATTTTAAAAAT
*
23176345 AAATATAAATTTTAAAAAT
1 AATTATAAATTTTAAAAAT
23176364 AATTATA
1 AATTATA
23176371 TATATTAAGT
Statistics
Matches: 21, Mismatches: 5, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (19 bp):
AATTATAAATTTTAAAAAT
Found at i:23180461 original size:26 final size:27
Alignment explanation
Indices: 23180404--23180463 Score: 72
Period size: 26 Copynumber: 2.3 Consensus size: 27
23180394 AGTGTATATG
* * *
23180404 ATAA-TTTATATATATATATATTTATT
1 ATAATTTTATATAAAAATATATGTATT
23180430 AT-ATTTTATATAAAAAT-TATGTATT
1 ATAATTTTATATAAAAATATATGTATT
23180455 ATAATTTTA
1 ATAATTTTA
23180464 AACATAAAAG
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
25 10 0.34
26 19 0.66
ACGTcount: A:0.43, C:0.00, G:0.02, T:0.55
Consensus pattern (27 bp):
ATAATTTTATATAAAAATATATGTATT
Found at i:23181196 original size:27 final size:27
Alignment explanation
Indices: 23181156--23181208 Score: 97
Period size: 27 Copynumber: 2.0 Consensus size: 27
23181146 ATGACGTTAT
*
23181156 AAACCGTTATCAAAATAACAGCGCAAC
1 AAACCGTTACCAAAATAACAGCGCAAC
23181183 AAACCGTTACCAAAATAACAGCGCAA
1 AAACCGTTACCAAAATAACAGCGCAA
23181209 TATGCATGGC
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.49, C:0.26, G:0.11, T:0.13
Consensus pattern (27 bp):
AAACCGTTACCAAAATAACAGCGCAAC
Found at i:23182239 original size:3 final size:3
Alignment explanation
Indices: 23182224--23182254 Score: 53
Period size: 3 Copynumber: 10.3 Consensus size: 3
23182214 AGTGGGGGAA
*
23182224 GTG GTG TTG GTG GTG GTG GTG GTG GTG GTG G
1 GTG GTG GTG GTG GTG GTG GTG GTG GTG GTG G
23182255 GACGATATTG
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.65, T:0.35
Consensus pattern (3 bp):
GTG
Found at i:23185254 original size:2 final size:2
Alignment explanation
Indices: 23185242--23185293 Score: 70
Period size: 2 Copynumber: 26.5 Consensus size: 2
23185232 CTAAAATCAA
* * *
23185242 AT AT AT CT AT AT AT AT AT AT AT AT AT AT GT AT GT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
23185283 AT AT AT AT AT A
1 AT AT AT AT AT A
23185294 ATTTTCTCAG
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.44, C:0.02, G:0.04, T:0.50
Consensus pattern (2 bp):
AT
Found at i:23189030 original size:2 final size:2
Alignment explanation
Indices: 23189023--23189057 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
23189013 TGCTTTGATT
23189023 TA TA TA TA 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 TA TA TA TA T
23189058 GCTTGTCTAG
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:23193660 original size:121 final size:121
Alignment explanation
Indices: 23193446--23193687 Score: 430
Period size: 121 Copynumber: 2.0 Consensus size: 121
23193436 CATGCCAAAG
*
23193446 GAATGGCAGAAGCTGAGAAGAAATCGCCTATCATTGCGAAGTGCTGGCCCATCACTACAAATTCC
1 GAATGGCAGAAGCTGAAAAGAAATCGCCTATCATTGCGAAGTGCTGGCCCATCACTACAAATTCC
23193511 CCCTGAGAATAATGCTACAAGGACCATAGCAGTGACCTTGATAACTTGCATTCAGA
66 CCCTGAGAATAATGCTACAAGGACCATAGCAGTGACCTTGATAACTTGCATTCAGA
* *
23193567 GAATGGCGGAAGCTGAAAAGAAATCGCCTATCATTGCGAAGTGCTGGCCCATGACTACAAATTCC
1 GAATGGCAGAAGCTGAAAAGAAATCGCCTATCATTGCGAAGTGCTGGCCCATCACTACAAATTCC
** *
23193632 TTCTGAGAATAATGCTACAAGGGCCATAGCAGTGACCTTGATAACTTGCATTCAGA
66 CCCTGAGAATAATGCTACAAGGACCATAGCAGTGACCTTGATAACTTGCATTCAGA
23193688 ACCTCTGCTA
Statistics
Matches: 115, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
121 115 1.00
ACGTcount: A:0.33, C:0.23, G:0.22, T:0.22
Consensus pattern (121 bp):
GAATGGCAGAAGCTGAAAAGAAATCGCCTATCATTGCGAAGTGCTGGCCCATCACTACAAATTCC
CCCTGAGAATAATGCTACAAGGACCATAGCAGTGACCTTGATAACTTGCATTCAGA
Found at i:23196166 original size:39 final size:39
Alignment explanation
Indices: 23196112--23196190 Score: 149
Period size: 39 Copynumber: 2.0 Consensus size: 39
23196102 ATTGAAACCA
*
23196112 TCTTTTTGTTAATGTTCCACTATTTTAGCAATAATCACT
1 TCTTTTTGTTAATGTTCCACTATATTAGCAATAATCACT
23196151 TCTTTTTGTTAATGTTCCACTATATTAGCAATAATCACT
1 TCTTTTTGTTAATGTTCCACTATATTAGCAATAATCACT
23196190 T
1 T
23196191 GTGCGTCAAA
Statistics
Matches: 39, Mismatches: 1, Indels: 0
0.98 0.03 0.00
Matches are distributed among these distances:
39 39 1.00
ACGTcount: A:0.27, C:0.18, G:0.08, T:0.48
Consensus pattern (39 bp):
TCTTTTTGTTAATGTTCCACTATATTAGCAATAATCACT
Found at i:23200890 original size:216 final size:216
Alignment explanation
Indices: 23200329--23200971 Score: 956
Period size: 216 Copynumber: 3.0 Consensus size: 216
23200319 CCCAGTGACC
* * *
23200329 CTCCTATTATATTCGATGTGGGATTCAGGA---CTCCTTGGGTCCGTGACATTCTCCCCCAACCA
1 CTCCTATTATGTTCGATGTGGGATTCAGGACTCCTCCTTAGGTCCGTGACATTCTCCCCCACCCA
* * *
23200391 ACCTCGTGACGCCCTCATCACGGAGGCTGGCCACCCTGCCTACCTCCCTAGAGGCGCTTGGTGTA
66 ACCTCGTGACGCCCTCGTCAC-GAGGCTGGCCACCCTGCCTACCTCCCTCGAGGCGCTTGGAGTA
* * *
23200456 GATCGAACGGTTTAGGACTGGCTCTGATACCACTTGTCACGAGTTGAAACTTAAACTCCGACCCG
130 GATCGAACGGTTTAGGACTGGCTCTGATACCACTTGTCACGGGTCGAAACTTAAGCTCCGACCCG
23200521 TGCGGCTCCAGGACCCGGG-CT
195 TGCGGCTCCAGGACCCGGGCCT
* *
23200542 CTCCTATTATG-TCGATGTGGGATTCAAGACTCCTCTTTAGGTCCGTGACATTCTCCCCCACCCA
1 CTCCTATTATGTTCGATGTGGGATTCAGGACTCCTCCTTAGGTCCGTGACATTCTCCCCCACCCA
*
23200606 ACCTCGTGACGCCCTCGTCACGAAGGCTGGCCACCCTGCCTACCTCTCTCGAGGCGCTTGGAGTA
66 ACCTCGTGACGCCCTCGTCACG-AGGCTGGCCACCCTGCCTACCTCCCTCGAGGCGCTTGGAGTA
* **
23200671 GATCGAACGGTTTAGGGCTGGCTCTGATACCACTTGTCACGGGTCGAAACTTAAGCTCCGACGTG
130 GATCGAACGGTTTAGGACTGGCTCTGATACCACTTGTCACGGGTCGAAACTTAAGCTCCGACCCG
*
23200736 TGCGGCTCCAGGACCTGGGCCT
195 TGCGGCTCCAGGACCCGGGCCT
* * * * * *
23200758 -TCCTATTATGTTCGACGTGAGATTCAGGACTCCTCCTTAGGTCCATGACATTTTCCTCTACCCA
1 CTCCTATTATGTTCGATGTGGGATTCAGGACTCCTCCTTAGGTCCGTGACATTCTCCCCCACCCA
* * *
23200822 ACCTCATGACGCCCTCGTCACAGAGGCTGGCCACCCTGCCTACCTCCCTCGAAGCGCTTGGCGTA
66 ACCTCGTGACGCCCTCGTCAC-GAGGCTGGCCACCCTGCCTACCTCCCTCGAGGCGCTTGGAGTA
* *
23200887 GATCGAACGGTTTAGGTCTAGCTCTGATACCACTTGTCACGGGTCGAAACTTAAGCTCCGACCCG
130 GATCGAACGGTTTAGGACTGGCTCTGATACCACTTGTCACGGGTCGAAACTTAAGCTCCGACCCG
* *
23200952 TGTGGCTCCAAGACCCGGGC
195 TGCGGCTCCAGGACCCGGGC
23200972 ATCCACTCAC
Statistics
Matches: 388, Mismatches: 35, Indels: 11
0.89 0.08 0.03
Matches are distributed among these distances:
212 17 0.04
213 10 0.03
214 1 0.00
215 175 0.45
216 184 0.47
217 1 0.00
ACGTcount: A:0.19, C:0.33, G:0.24, T:0.24
Consensus pattern (216 bp):
CTCCTATTATGTTCGATGTGGGATTCAGGACTCCTCCTTAGGTCCGTGACATTCTCCCCCACCCA
ACCTCGTGACGCCCTCGTCACGAGGCTGGCCACCCTGCCTACCTCCCTCGAGGCGCTTGGAGTAG
ATCGAACGGTTTAGGACTGGCTCTGATACCACTTGTCACGGGTCGAAACTTAAGCTCCGACCCGT
GCGGCTCCAGGACCCGGGCCT
Found at i:23203784 original size:21 final size:19
Alignment explanation
Indices: 23203733--23203784 Score: 50
Period size: 21 Copynumber: 2.5 Consensus size: 19
23203723 AGGTGGCGGT
*
23203733 GGAGGTGGTGCTCCACCTA
1 GGAGGTGGAGCTCCACCTA
*
23203752 GAGATGGAGGAGCTCCACACATA
1 G-GA-GGTGGAGCTCCAC-C-TA
23203775 GGAGGTGGAG
1 GGAGGTGGAG
23203785 GTGGTGGGGG
Statistics
Matches: 26, Mismatches: 3, Indels: 6
0.74 0.09 0.17
Matches are distributed among these distances:
19 1 0.04
20 2 0.08
21 17 0.65
22 3 0.12
23 3 0.12
ACGTcount: A:0.25, C:0.19, G:0.40, T:0.15
Consensus pattern (19 bp):
GGAGGTGGAGCTCCACCTA
Found at i:23203815 original size:30 final size:30
Alignment explanation
Indices: 23203781--23203878 Score: 106
Period size: 30 Copynumber: 3.2 Consensus size: 30
23203771 CATAGGAGGT
23203781 GGAGGTGGTGGGGGTGGTGCTCCATGTGGG
1 GGAGGTGGTGGGGGTGGTGCTCCATGTGGG
* * * * *
23203811 GGAGGAGGTGGTGCTGGTGCTCCACGAGCAGG
1 GGAGGTGGTGGGGGTGGTGCTCCATGTG--GG
* *
23203843 TGGAGGTGGTGGGGGTGGTGCTCCATTTGGA
1 -GGAGGTGGTGGGGGTGGTGCTCCATGTGGG
23203874 GGAGG
1 GGAGG
23203879 AAGAGGTGGC
Statistics
Matches: 53, Mismatches: 12, Indels: 6
0.75 0.17 0.08
Matches are distributed among these distances:
30 28 0.53
31 1 0.02
32 2 0.04
33 22 0.42
ACGTcount: A:0.11, C:0.12, G:0.55, T:0.21
Consensus pattern (30 bp):
GGAGGTGGTGGGGGTGGTGCTCCATGTGGG
Found at i:23203823 original size:27 final size:28
Alignment explanation
Indices: 23203792--23203911 Score: 89
Period size: 27 Copynumber: 4.1 Consensus size: 28
23203782 GAGGTGGTGG
23203792 GGGTGGTGCTCCATGTGGGGGAGGAGGT
1 GGGTGGTGCTCCATGTGGGGGAGGAGGT
* * *
23203820 GGTGCTGGTGCTCCACGAGCAGGTGGAGGTGGT
1 GG-G-TGGTGCTCCATGTG--GG-GGAGGAGGT
* * *
23203853 GGGGGTGGTGCTCCATTTGGAGGAGGAAG-
1 --GGGTGGTGCTCCATGTGGGGGAGGAGGT
* **
23203882 AGGTGGCACTCCATGTGGGGGAGGAGGT
1 GGGTGGTGCTCCATGTGGGGGAGGAGGT
23203910 GG
1 GG
23203912 AGGTGGCACT
Statistics
Matches: 68, Mismatches: 16, Indels: 16
0.68 0.16 0.16
Matches are distributed among these distances:
27 21 0.31
28 3 0.04
29 1 0.01
30 18 0.26
31 1 0.01
32 2 0.03
33 19 0.28
34 1 0.01
35 2 0.03
ACGTcount: A:0.14, C:0.13, G:0.53, T:0.20
Consensus pattern (28 bp):
GGGTGGTGCTCCATGTGGGGGAGGAGGT
Found at i:23203823 original size:33 final size:33
Alignment explanation
Indices: 23203775--23203879 Score: 117
Period size: 33 Copynumber: 3.3 Consensus size: 33
23203765 TCCACACATA
*
23203775 GGAGGTGGAGGTGGTGGGGGTGGTGCTCCATGT
1 GGAGGAGGAGGTGGTGGGGGTGGTGCTCCATGT
* * * *
23203808 GGGGGAGGAGGTGGT---GCTGGTGCTCCACGA
1 GGAGGAGGAGGTGGTGGGGGTGGTGCTCCATGT
* * *
23203838 GCAGGTGGAGGTGGTGGGGGTGGTGCTCCATTT
1 GGAGGAGGAGGTGGTGGGGGTGGTGCTCCATGT
23203871 GGAGGAGGA
1 GGAGGAGGA
23203880 AGAGGTGGCA
Statistics
Matches: 55, Mismatches: 14, Indels: 6
0.73 0.19 0.08
Matches are distributed among these distances:
30 24 0.44
33 31 0.56
ACGTcount: A:0.12, C:0.11, G:0.55, T:0.21
Consensus pattern (33 bp):
GGAGGAGGAGGTGGTGGGGGTGGTGCTCCATGT
Found at i:23203938 original size:33 final size:30
Alignment explanation
Indices: 23203871--23203946 Score: 89
Period size: 30 Copynumber: 2.4 Consensus size: 30
23203861 TGCTCCATTT
** *
23203871 GGAGGAGGAAGAGGTGGCACTCCATGTGGG
1 GGAGGAGGTGGAGGTGGCACTCCATGTGGA
23203901 GGAGGAGGTGGAGGTGGCACTCCATGCAATGGA
1 GGAGGAGGTGGAGGTGGCACTCCATG---TGGA
*
23203934 GGAGGGGGTGGAG
1 GGAGGAGGTGGAG
23203947 TAGGGGCTCC
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
30 24 0.62
33 15 0.38
ACGTcount: A:0.22, C:0.12, G:0.53, T:0.13
Consensus pattern (30 bp):
GGAGGAGGTGGAGGTGGCACTCCATGTGGA
Found at i:23207967 original size:5 final size:5
Alignment explanation
Indices: 23207957--23207986 Score: 60
Period size: 5 Copynumber: 6.0 Consensus size: 5
23207947 GATTATGATG
23207957 AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA
1 AGAAA AGAAA AGAAA AGAAA AGAAA AGAAA
23207987 TTTTGGGATT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.80, C:0.00, G:0.20, T:0.00
Consensus pattern (5 bp):
AGAAA
Done.